General information for g16485.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Leucine-rich repeat-containing protein 15.
Parent gene
- The parent gene g16485 is located on chr_4: 9668742..9670773 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_4 | g16485 | g16485.t1 | isoform | g16485.t1 | 9665829 | 9670773 |
| chr_4 | g16485 | g16485.t1 | exon | g16485.t1.exon1 | 9665829 | 9665868 |
| chr_4 | g16485 | g16485.t1 | cds | g16485.t1.CDS1 | 9665829 | 9665868 |
| chr_4 | g16485 | g16485.t1 | exon | g16485.t1.exon2 | 9666064 | 9667538 |
| chr_4 | g16485 | g16485.t1 | cds | g16485.t1.CDS2 | 9666064 | 9667538 |
| chr_4 | g16485 | g16485.t1 | exon | g16485.t1.exon3 | 9668161 | 9668344 |
| chr_4 | g16485 | g16485.t1 | cds | g16485.t1.CDS3 | 9668161 | 9668344 |
| chr_4 | g16485 | g16485.t1 | exon | g16485.t1.exon4 | 9668862 | 9669228 |
| chr_4 | g16485 | g16485.t1 | cds | g16485.t1.CDS4 | 9668862 | 9669228 |
| chr_4 | g16485 | g16485.t1 | exon | g16485.t1.exon5 | 9669389 | 9670268 |
| chr_4 | g16485 | g16485.t1 | cds | g16485.t1.CDS5 | 9669389 | 9670268 |
| chr_4 | g16485 | g16485.t1 | exon | g16485.t1.exon6 | 9670465 | 9670773 |
| chr_4 | g16485 | g16485.t1 | cds | g16485.t1.CDS6 | 9670465 | 9670773 |
| chr_4 | g16485 | g16485.t1 | TSS | g16485.t1 | 9670808 | 9670808 |
| chr_4 | g16485 | g16485.t1 | TTS | g16485.t1 | NA | NA |
Sequences
>g16485.t1 Gene=g16485 Length=3255
ATGAATTTCAAATTTTTAATTTTTGTCTTCCTTTTAAATCATTCAACTTTTTCACAACAT
GTTGAGTGTGATTATCGAATGATTGGAGCAGGTTATTCGTGTCATTTAAGAATTTTTAAT
GAGCACGGTTTTGATAATTTTACAAACGTTATTGGCGAGCATTTAGAAGGTAGAAACGAT
AATGATGTCACATCAATATATCCACTAGAAGGATCAACCCAAAATATGCCTCGAATATTT
TGTGATAAATTTTTTAATTTAATTTTGATTGATTTGAGTAGTTTAGGAATTGAAAAATTA
ACTGTTGAGTCTTTCAGTGGCTGTTCAGACCTTGAATTGTTAAGATTGTGGAACAACAAC
ATTCAAGAATTACCAGAAAATACTTTTGATAATAATATAAAACTAACATACTTGGATCTC
GATGGAAATGGCCTTCAAATAATCCCAGAAGATATTTTTATGAATTTAACTTCATTAAGG
GAACTTGAATTAAATAACAATCAACTTGAAAAACTTCCAAGTGGAATTTTTAGAACATTA
GTGAATTTGAGATATTTAGATTTGAGCAATAGTCACATAAATCAACTCAATCCACTTTGG
TTCGAAAATTTGAGAAATTTAATTCAACTCAAACTTTATTTCAATGAATTTCCATCAATT
TCCGAAGAAATTTTCTCAAATTTAGAAAATTTGGAAACACTCGACATAAGTCAAAATAAA
CGTGAAAATGGAATTGAATTTATCCATGATTTTGCATTTTCTTCATTAATAAATTTGAAA
TCTTTAACAATGAGCAACATGCAGTTAAAAATTCTCAATCCAAATTGGTTCAAAAACACA
ACAAATTTAGAAACAGTTTATTTCAATTTCAATCAAATTGATCACATTCCACCTCAAACA
TTTTCAAATCTTCCATTTTTAACTTCTCTGAATTTTTGGTCAAACAATTTAAAAGTTTTG
AGAAGAAATTCATTTGGAAGAAGTTTGGAAAATTTAAGAATTCTTGATTTAGACAGCAAT
GAAGTTGAAGCAATTGATAAAGAAATTATAAATGATGCTGAAGGACTTTTTACATTATAT
TTTGACTTCAACATTTGTGCCAGTCGAATGATGGGAAATTTTTTGGTAAATCGTGAAGAA
TTTATGGAAGAACTTGAGGAATGTTTTAGAAATGCTGAAATTGCTCATGATTCTTTCACT
CTTGAAAATCAACCTTTTGAGTTTTCATCGACTTCATTACCAGGAATTAATTTAAAATTT
CGATCAGACAATGAAGTTCATCTTGCTTTAACACCATTTAATTTCCCATGGACACCAATG
ATTGAAATTTTTATTGGTGCTGGCAATAACACAAGGTCAATCATTAGAAGAAATCAAGAA
ACTGATGTAGTTACAGTTCCAACTCCAGGAATCATCAGAGCTGATCAATGGAATGGATTT
AGAATCACTTGGGCAAATCATGCAATTCTTGTATGGAGAGAAGGTGAAGAATGGCCTTTC
ATGGGTTTCACAATGACTGACTTTTTTCCTGTCAATTTTTATGGATTAAGAGCACCTACA
AATGTTACTTACAAATGTCATTTAAATATTGTTAATTTTGATGGATTTGATGATTTTGAG
GAAATTAGCGGTGCTCATATTGAAGGGTTTTCTAATGAAAATGTGACTGAAGTGAGAAGA
TTTATGGGAATGACAACTAACTTACCGAGAATAATTTGTGATGGGTTTTTAAATTTAGAA
ATATTAGACATGAATAGTTACACAATCACAACAGTTTTGCCATCATCATTAGAAAACTGC
TCAAAACTTCTCTACCTTGATCTCTACCACAACAAAATTACAAGCCTTTCAGCTACAACT
TTCCTTTCAACTTTAAAACTTCAATATTTAGACCTCGATGGAAATCAACTGCAGGAACTT
GATGAAGAAATTTTTCATCCTTTATCAAATCTTCAAACACTTTTTCTACGAAATAATCCA
TTCAGTTCAGCTTTTCCGAGTAAGATTTTTGATAATTTAACAAATTTGGAAGTTCTTTAC
ATTAGTAATTGTCGAATTTCTTCAATAGATTTAAATTGGTTTGAAAATTTACAAAATTTA
AAACAATTGCAAATTTACGACAATTTTTTATCTATTTTGCCATCAAATGTTTTTGATAAT
CTCAAAAATTTAAATGTTCTTGATATTGGTGTCAATGAAATTTTAAAAATTGACAGTGAA
GTTTTTGAAAAACTCACTAATTTGACAGAACTTTCAATGGATCGAATGAAACTCACAAAA
ATTGATGAAAATTGGTATAAAAATTTAAAAAATTTGACAGTTCTTTATTTGTATATAAAT
CAAATTGAAAATTTAAATGGAAAAGAATTTGAAAATCTTGAAAATCTTCAGTATCTTCAT
TTGGCTTACAATTCAATAAATTTCATCGCTTCTGAGAGTTTTTCAAATCTTCAAAGTCTT
CAATATTTAAATTTAAATAACAACAAAATCACAAGTTTGCAACCAAATTTATTTCAAAAT
TCTAAAAATTTACAATTTGTTTATTTGGATCACAATTATCTTCAAGATCTTCCACTGGAA
ATTTTTAAAGAAAACTCCAATTTAACAATTTTGTCAATTTATTCAAACAATTTGAGAACT
TTGAATCGAAAATCTTTTGGTGAACTCAAAAATTTAATTATGATGGATTTTTCTGAAAAT
TTTGTTAATGCTGTTGATCAAAATATCATCGATGAAGCTGAAAATTTAGTAATTTTATAT
TTCATGGCAAATTTTTGTGCGAGTGGAATTTTTATAAGTTTTCAAAGAGAACTTGAAAGA
TGTTTTATAAATTATCAATATTATTTTGACATAATTACCAATTCAAATGAGAATTATCAA
TTCCATTTGGCATCAAATGTAGGAGTAAATTTACGAGTTCAAACAAATGATGAAGTTCAT
GTTGCATTAACACCATTTAATTTCCCATGGACACCAATGATTGAAATTTTTATTGGTGCT
GGCAATAACACAAGGTCAATCATTAGAAGAAATCAAGAAACTGATGTAGTTACAGTTCCA
ACTCCAGGAATCATCAGAGCTGGTCAATGGAATGGATTTAGAATCACTTGGGCAAATCAT
GCAATTCTTGTATGGAGAGAAGGTGAAGAATGGCCTTTTATGGGTTTCACAATGACTGAC
TTTTTTCCTGTCAATTTTTATGGATTAAAGTCAATAAATACTGATGCAATTTGGGGTCTA
CAACCTAGCAATTAA
>g16485.t1 Gene=g16485 Length=1084
MNFKFLIFVFLLNHSTFSQHVECDYRMIGAGYSCHLRIFNEHGFDNFTNVIGEHLEGRND
NDVTSIYPLEGSTQNMPRIFCDKFFNLILIDLSSLGIEKLTVESFSGCSDLELLRLWNNN
IQELPENTFDNNIKLTYLDLDGNGLQIIPEDIFMNLTSLRELELNNNQLEKLPSGIFRTL
VNLRYLDLSNSHINQLNPLWFENLRNLIQLKLYFNEFPSISEEIFSNLENLETLDISQNK
RENGIEFIHDFAFSSLINLKSLTMSNMQLKILNPNWFKNTTNLETVYFNFNQIDHIPPQT
FSNLPFLTSLNFWSNNLKVLRRNSFGRSLENLRILDLDSNEVEAIDKEIINDAEGLFTLY
FDFNICASRMMGNFLVNREEFMEELEECFRNAEIAHDSFTLENQPFEFSSTSLPGINLKF
RSDNEVHLALTPFNFPWTPMIEIFIGAGNNTRSIIRRNQETDVVTVPTPGIIRADQWNGF
RITWANHAILVWREGEEWPFMGFTMTDFFPVNFYGLRAPTNVTYKCHLNIVNFDGFDDFE
EISGAHIEGFSNENVTEVRRFMGMTTNLPRIICDGFLNLEILDMNSYTITTVLPSSLENC
SKLLYLDLYHNKITSLSATTFLSTLKLQYLDLDGNQLQELDEEIFHPLSNLQTLFLRNNP
FSSAFPSKIFDNLTNLEVLYISNCRISSIDLNWFENLQNLKQLQIYDNFLSILPSNVFDN
LKNLNVLDIGVNEILKIDSEVFEKLTNLTELSMDRMKLTKIDENWYKNLKNLTVLYLYIN
QIENLNGKEFENLENLQYLHLAYNSINFIASESFSNLQSLQYLNLNNNKITSLQPNLFQN
SKNLQFVYLDHNYLQDLPLEIFKENSNLTILSIYSNNLRTLNRKSFGELKNLIMMDFSEN
FVNAVDQNIIDEAENLVILYFMANFCASGIFISFQRELERCFINYQYYFDIITNSNENYQ
FHLASNVGVNLRVQTNDEVHVALTPFNFPWTPMIEIFIGAGNNTRSIIRRNQETDVVTVP
TPGIIRAGQWNGFRITWANHAILVWREGEEWPFMGFTMTDFFPVNFYGLKSINTDAIWGL
QPSN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g16485.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 68 | 242 | 3.4E-39 |
| 20 | g16485.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 243 | 407 | 1.2E-22 |
| 19 | g16485.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 523 | 773 | 2.4E-50 |
| 21 | g16485.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 774 | 988 | 9.5E-32 |
| 11 | g16485.t1 | PANTHER | PTHR46473 | GH08155P | 87 | 207 | 1.4E-114 |
| 8 | g16485.t1 | PANTHER | PTHR46473 | GH08155P | 158 | 286 | 1.4E-114 |
| 10 | g16485.t1 | PANTHER | PTHR46473 | GH08155P | 209 | 412 | 1.4E-114 |
| 13 | g16485.t1 | PANTHER | PTHR46473 | GH08155P | 569 | 708 | 1.4E-114 |
| 9 | g16485.t1 | PANTHER | PTHR46473 | GH08155P | 699 | 810 | 1.4E-114 |
| 12 | g16485.t1 | PANTHER | PTHR46473 | GH08155P | 771 | 918 | 1.4E-114 |
| 5 | g16485.t1 | Pfam | PF13855 | Leucine rich repeat | 134 | 193 | 1.2E-12 |
| 2 | g16485.t1 | Pfam | PF13855 | Leucine rich repeat | 282 | 341 | 3.8E-9 |
| 7 | g16485.t1 | Pfam | PF12248 | Farnesoic acid 0-methyl transferase | 427 | 518 | 3.6E-19 |
| 1 | g16485.t1 | Pfam | PF13855 | Leucine rich repeat | 606 | 660 | 7.0E-11 |
| 3 | g16485.t1 | Pfam | PF13855 | Leucine rich repeat | 674 | 733 | 7.4E-11 |
| 4 | g16485.t1 | Pfam | PF13855 | Leucine rich repeat | 795 | 854 | 6.9E-14 |
| 6 | g16485.t1 | Pfam | PF12248 | Farnesoic acid 0-methyl transferase | 980 | 1074 | 1.2E-19 |
| 24 | g16485.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 25 | g16485.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 26 | g16485.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 12 | - |
| 28 | g16485.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 18 | - |
| 23 | g16485.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 915 | - |
| 27 | g16485.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 916 | 934 | - |
| 22 | g16485.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 935 | 1084 | - |
| 76 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 86 | 107 | 4.501 |
| 70 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 110 | 131 | 6.549 |
| 78 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 134 | 155 | 7.335 |
| 77 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 158 | 179 | 7.758 |
| 75 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 182 | 203 | 7.358 |
| 80 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 206 | 227 | 5.71 |
| 88 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 230 | 252 | 5.148 |
| 87 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 282 | 303 | 6.541 |
| 72 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 331 | 352 | 6.026 |
| 81 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 602 | 623 | 8.39 |
| 84 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 626 | 647 | 8.228 |
| 74 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 650 | 672 | 5.255 |
| 82 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 675 | 696 | 6.58 |
| 79 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 699 | 720 | 5.094 |
| 86 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 723 | 744 | 6.441 |
| 85 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 771 | 792 | 7.019 |
| 71 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 795 | 816 | 7.181 |
| 83 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 819 | 840 | 8.582 |
| 69 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 843 | 864 | 6.495 |
| 73 | g16485.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 867 | 888 | 5.394 |
| 32 | g16485.t1 | SMART | SM00364 | LRR_bac_2 | 108 | 127 | 120.0 |
| 38 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 108 | 131 | 4.1 |
| 40 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 133 | 155 | 12.0 |
| 34 | g16485.t1 | SMART | SM00364 | LRR_bac_2 | 156 | 175 | 54.0 |
| 39 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 156 | 179 | 1.9E-5 |
| 61 | g16485.t1 | SMART | SM00365 | LRR_sd22_2 | 156 | 178 | 240.0 |
| 37 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 180 | 203 | 4.2 |
| 55 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 204 | 227 | 2.5 |
| 42 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 228 | 255 | 46.0 |
| 63 | g16485.t1 | SMART | SM00365 | LRR_sd22_2 | 228 | 249 | 370.0 |
| 46 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 256 | 279 | 37.0 |
| 49 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 280 | 303 | 3.7 |
| 60 | g16485.t1 | SMART | SM00365 | LRR_sd22_2 | 280 | 306 | 90.0 |
| 30 | g16485.t1 | SMART | SM00364 | LRR_bac_2 | 304 | 323 | 590.0 |
| 57 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 304 | 327 | 6.3 |
| 44 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 329 | 352 | 3.0 |
| 66 | g16485.t1 | SMART | SM00365 | LRR_sd22_2 | 329 | 354 | 270.0 |
| 35 | g16485.t1 | SMART | SM00364 | LRR_bac_2 | 600 | 619 | 110.0 |
| 50 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 600 | 623 | 12.0 |
| 68 | g16485.t1 | SMART | SM00365 | LRR_sd22_2 | 600 | 621 | 220.0 |
| 31 | g16485.t1 | SMART | SM00364 | LRR_bac_2 | 624 | 643 | 580.0 |
| 62 | g16485.t1 | SMART | SM00365 | LRR_sd22_2 | 624 | 642 | 420.0 |
| 54 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 626 | 647 | 3.2 |
| 43 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 648 | 672 | 4.7 |
| 64 | g16485.t1 | SMART | SM00365 | LRR_sd22_2 | 648 | 675 | 45.0 |
| 53 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 673 | 696 | 0.47 |
| 29 | g16485.t1 | SMART | SM00364 | LRR_bac_2 | 697 | 716 | 11.0 |
| 41 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 697 | 720 | 0.42 |
| 47 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 721 | 744 | 26.0 |
| 65 | g16485.t1 | SMART | SM00365 | LRR_sd22_2 | 721 | 750 | 190.0 |
| 45 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 745 | 768 | 69.0 |
| 51 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 769 | 792 | 8.6 |
| 59 | g16485.t1 | SMART | SM00365 | LRR_sd22_2 | 769 | 787 | 3.0 |
| 48 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 793 | 816 | 0.033 |
| 67 | g16485.t1 | SMART | SM00365 | LRR_sd22_2 | 793 | 819 | 56.0 |
| 33 | g16485.t1 | SMART | SM00364 | LRR_bac_2 | 817 | 837 | 81.0 |
| 56 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 817 | 840 | 7.5E-5 |
| 52 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 842 | 864 | 47.0 |
| 58 | g16485.t1 | SMART | SM00365 | LRR_sd22_2 | 865 | 891 | 310.0 |
| 36 | g16485.t1 | SMART | SM00369 | LRR_typ_2 | 866 | 888 | 130.0 |
| 14 | g16485.t1 | SUPERFAMILY | SSF52058 | L domain-like | 59 | 365 | 2.21E-49 |
| 16 | g16485.t1 | SUPERFAMILY | SSF52058 | L domain-like | 566 | 661 | 3.2E-21 |
| 15 | g16485.t1 | SUPERFAMILY | SSF52058 | L domain-like | 645 | 940 | 2.44E-50 |
| 17 | g16485.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005515 | protein binding | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed