General information for g16484.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Insulin-like growth factor-binding protein complex acid labile subunit.
Parent gene
- The parent gene g16484 is located on chr_4: 9662721..9664636 (- 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 | g16484 | g16484.t1 | TTS | g16484.t1 | 9662422 | 9662422 |
| chr_4 | g16484 | g16484.t1 | isoform | g16484.t1 | 9662721 | 9664636 |
| chr_4 | g16484 | g16484.t1 | exon | g16484.t1.exon1 | 9662721 | 9662784 |
| chr_4 | g16484 | g16484.t1 | cds | g16484.t1.CDS1 | 9662721 | 9662784 |
| chr_4 | g16484 | g16484.t1 | exon | g16484.t1.exon2 | 9662977 | 9663343 |
| chr_4 | g16484 | g16484.t1 | cds | g16484.t1.CDS2 | 9662977 | 9663343 |
| chr_4 | g16484 | g16484.t1 | exon | g16484.t1.exon3 | 9663445 | 9664636 |
| chr_4 | g16484 | g16484.t1 | cds | g16484.t1.CDS3 | 9663445 | 9664636 |
| chr_4 | g16484 | g16484.t1 | TSS | g16484.t1 | 9664686 | 9664686 |
Sequences
>g16484.t1 Gene=g16484 Length=1623
ATGAAATTAATTATTTTCATAATTTTGGCTTTAATTTCATCTTTGACATTTGCTCAAGAA
CCTTTCATAAGTTGTGACTATTTCGACTACTTTGTCAATAATACAGAAGTTTACGCTTGT
CATCTTCGCATTCAAAATCCAAATGGAATTGAGTTTAATGAAATAATTGGTGAACATCGT
GAATCAATGACAAATAATGATGTTGTTGCTCTAATTCCTTTAATTGGTTCAACAACAATC
GTTCCACAAATCATTTGTAGTCAATTTTTGAACCTAGAAATTCTTGATCTTTCATTTTTA
TCAATTACAACTATCACAGCAACTTCATTTAGTGGCTGTCAAAATATTACTTGGCTTCGA
CTCTATTATAACCATGTTCCATCAATGCCAGGAAATACTTTTGCTAACAATCCTAGATTG
ACTTTCATTGATATGGATAATTTAGGATTAACTTCAATTCCTGAAAATTTGTTCTCAAAT
TTAGTCAATCTTGAAGAACTTGAACTTTCTGGCAATCATTTTTCAACACTTCCAAGTGGT
CTATTTAGAGGATTAACGAGACTTCATACACTTTATTTGAGCAGTTTGGGTTTAACAGAA
TTTGATGAAGAAATTTTTGCTGACCTTGAAAGTCTTACATATTTGACACTTTTTAATAAT
TTATTGACAAATATTTCGGAACGTTCTTTTGAAAATTTGAGATTATTAGAAATTCTGGAT
TTGGGAAATAATCAAATTGGTGAACAAATGCCAAATGGAATTTTTGCTAATTTAAATAAT
TTAATCACATTGTCATTGGTCAATATTGGAGTGAGAAATTTACGACAAGAATGGTTTAAT
AATTTGAGAAATCTTCATCAACTTTCATTAGCACGTAATAATATTGATCAATTACCAAGT
GGTGTCTTTAATGGTTTAGTAAATATCGAAAGAATTAGTTTTTGGCAAAATAGAATAAAA
ACAATTGATAGAGAAGCATTTGGAAGTGTTAATACTTTGAGATATTTAGATCTAGACATG
AATGTTGTGAACTCTATGGATCAAAGATTATTCAATGATTCTGTGAATTTACAGTCACTT
TATTTTAGTAATAATCTTTGCGCTAGTGGTTATTTTTTTAATTTTCATTTAAATCGAGAA
AATTTCATTCAAAGACTTGGAAGATGTTTTAGAAATTATGGATTTACTGTTGACACAGAC
ACAGAAAGTAATGAACCTTATCAATTTTTCAATGCACCAACTCCTGGAATTCAACTTCGT
GTGACATCAAATGAAGAAGTTCAACTTGCTTTTACACCTTTTAATTTTCCATGGACACCA
ATGCTTGAAATTTTCATCGGTGCTGCAAACAATACAAGGTCAATCATTAGAAGAAATCAA
GAAGATGAAGTTGTTGTTGTTCCAACACCAGGAATTTTAAGAGATGGTGAAATGAATGGA
TTTAGAATTACTTGGGCAAATCACATTCTACTAGCATTTAGAGAAGGTGAAGAGTTTCCA
TTTCTCGCTTTTACAATGAGTGATTTCTTTAATGTAAATTTTTATGGACTTCGATCACCA
ACAACAAGAGCAACTTGGAGTATTCAACCTATTGACAGAGAAAATCTTCAAACAACGCTT
TAA
>g16484.t1 Gene=g16484 Length=540
MKLIIFIILALISSLTFAQEPFISCDYFDYFVNNTEVYACHLRIQNPNGIEFNEIIGEHR
ESMTNNDVVALIPLIGSTTIVPQIICSQFLNLEILDLSFLSITTITATSFSGCQNITWLR
LYYNHVPSMPGNTFANNPRLTFIDMDNLGLTSIPENLFSNLVNLEELELSGNHFSTLPSG
LFRGLTRLHTLYLSSLGLTEFDEEIFADLESLTYLTLFNNLLTNISERSFENLRLLEILD
LGNNQIGEQMPNGIFANLNNLITLSLVNIGVRNLRQEWFNNLRNLHQLSLARNNIDQLPS
GVFNGLVNIERISFWQNRIKTIDREAFGSVNTLRYLDLDMNVVNSMDQRLFNDSVNLQSL
YFSNNLCASGYFFNFHLNRENFIQRLGRCFRNYGFTVDTDTESNEPYQFFNAPTPGIQLR
VTSNEEVQLAFTPFNFPWTPMLEIFIGAANNTRSIIRRNQEDEVVVVPTPGILRDGEMNG
FRITWANHILLAFREGEEFPFLAFTMSDFFNVNFYGLRSPTTRATWSIQPIDRENLQTTL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g16484.t1 | Coils | Coil | Coil | 533 | 540 | - |
| 12 | g16484.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 32 | 380 | 2.8E-65 |
| 6 | g16484.t1 | PANTHER | PTHR45712 | AGAP008170-PA | 84 | 276 | 1.1E-52 |
| 8 | g16484.t1 | PANTHER | PTHR45712:SF22 | AGAP008170-PA | 84 | 276 | 1.1E-52 |
| 5 | g16484.t1 | PANTHER | PTHR45712 | AGAP008170-PA | 140 | 365 | 1.1E-52 |
| 7 | g16484.t1 | PANTHER | PTHR45712:SF22 | AGAP008170-PA | 140 | 365 | 1.1E-52 |
| 2 | g16484.t1 | Pfam | PF13855 | Leucine rich repeat | 91 | 147 | 8.6E-8 |
| 1 | g16484.t1 | Pfam | PF13855 | Leucine rich repeat | 187 | 246 | 1.1E-11 |
| 3 | g16484.t1 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 250 | 366 | 3.5E-11 |
| 4 | g16484.t1 | Pfam | PF12248 | Farnesoic acid 0-methyl transferase | 433 | 519 | 3.1E-17 |
| 15 | g16484.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 16 | g16484.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 17 | g16484.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 13 | - |
| 18 | g16484.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 14 | g16484.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 540 | - |
| 31 | g16484.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 91 | 112 | 5.895 |
| 35 | g16484.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 115 | 136 | 5.232 |
| 36 | g16484.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 139 | 160 | 4.709 |
| 32 | g16484.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 163 | 184 | 7.165 |
| 33 | g16484.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 187 | 208 | 4.77 |
| 34 | g16484.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 211 | 232 | 7.011 |
| 37 | g16484.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 235 | 257 | 5.802 |
| 30 | g16484.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 284 | 305 | 6.796 |
| 38 | g16484.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 332 | 353 | 4.84 |
| 26 | g16484.t1 | SMART | SM00369 | LRR_typ_2 | 89 | 112 | 51.0 |
| 25 | g16484.t1 | SMART | SM00369 | LRR_typ_2 | 113 | 136 | 200.0 |
| 22 | g16484.t1 | SMART | SM00369 | LRR_typ_2 | 138 | 160 | 330.0 |
| 24 | g16484.t1 | SMART | SM00369 | LRR_typ_2 | 161 | 184 | 5.0E-6 |
| 27 | g16484.t1 | SMART | SM00369 | LRR_typ_2 | 185 | 208 | 34.0 |
| 20 | g16484.t1 | SMART | SM00369 | LRR_typ_2 | 209 | 232 | 0.63 |
| 29 | g16484.t1 | SMART | SM00369 | LRR_typ_2 | 233 | 257 | 0.072 |
| 23 | g16484.t1 | SMART | SM00369 | LRR_typ_2 | 282 | 305 | 8.8E-4 |
| 21 | g16484.t1 | SMART | SM00369 | LRR_typ_2 | 306 | 329 | 21.0 |
| 28 | g16484.t1 | SMART | SM00369 | LRR_typ_2 | 330 | 353 | 230.0 |
| 9 | g16484.t1 | SUPERFAMILY | SSF52058 | L domain-like | 57 | 369 | 7.48E-49 |
| 11 | g16484.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 19 | g16484.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 10 | g16484.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 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