General information for g17431.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Slit homolog 3 protein.
Parent gene
- The parent gene g17431 is located on chr_4: 13499613..13503529 (+ 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 | g17431 | g17431.t1 | TSS | g17431.t1 | 13499591 | 13499591 |
| chr_4 | g17431 | g17431.t1 | isoform | g17431.t1 | 13499613 | 13503529 |
| chr_4 | g17431 | g17431.t1 | exon | g17431.t1.exon1 | 13499613 | 13499907 |
| chr_4 | g17431 | g17431.t1 | cds | g17431.t1.CDS1 | 13499613 | 13499907 |
| chr_4 | g17431 | g17431.t1 | exon | g17431.t1.exon2 | 13499964 | 13500779 |
| chr_4 | g17431 | g17431.t1 | cds | g17431.t1.CDS2 | 13499964 | 13500779 |
| chr_4 | g17431 | g17431.t1 | exon | g17431.t1.exon3 | 13500847 | 13501518 |
| chr_4 | g17431 | g17431.t1 | cds | g17431.t1.CDS3 | 13500847 | 13501518 |
| chr_4 | g17431 | g17431.t1 | exon | g17431.t1.exon4 | 13501574 | 13502197 |
| chr_4 | g17431 | g17431.t1 | cds | g17431.t1.CDS4 | 13501574 | 13502197 |
| chr_4 | g17431 | g17431.t1 | exon | g17431.t1.exon5 | 13502251 | 13502946 |
| chr_4 | g17431 | g17431.t1 | cds | g17431.t1.CDS5 | 13502251 | 13502946 |
| chr_4 | g17431 | g17431.t1 | exon | g17431.t1.exon6 | 13503000 | 13503529 |
| chr_4 | g17431 | g17431.t1 | cds | g17431.t1.CDS6 | 13503000 | 13503529 |
| chr_4 | g17431 | g17431.t1 | TTS | g17431.t1 | 13503611 | 13503611 |
Sequences
>g17431.t1 Gene=g17431 Length=3633
ATGAAAACATTGCTATTATTTGCAGTGTTTCAATTTTTAATCTTGTATGGTCGAGGTCAA
GAGATAAAACCACGTTGTGATTATAGTCATCAACTGTTTAATTATCAATGTAATTTTACC
ATCAACAACATCAATAAACGGAATAACTTCGGATATACTACTGGAACTCATTTAAATGGC
ATGATTAACAATGATGATGAATCTTTTATCAGATGTAATTATACAATCTCAGCAAATATC
ATTTGTGACATGAGAATTTTTAATCCGAATGGTTTGGAATTTTATGAAATTGAAGGTCAA
TTACCACCAGGTATAAATCACAATCAAGTTACAGTAGTTGTAGCTATAAATCAAAATTCA
AGGAACGTACCGAGCATCATCTGTCAACGATTTTTTAATCTTGCAACTTTGGCCTTCCAA
TTTTCTTTTGTTCGTGACATCAATCAAAATGCTTTTGCAAACTGTCACAATCTTCAAGCT
CTTCATCTTGGTTTCAATGATCTTCAAGTTGTTCCATCTTCAGTCTTTCGAAGTTTGACT
AATTTAACACTTCTTGATCTTGGATTTAATTTCATTCATCGAATTTATCTTGATTCTTTC
ACCGGTCCATCACAATTGTCAACTTTATTGCTTGATTTTAATGAAATTCGTGAAATTCCT
TATGGAACATTTAATGAACATGAAAATATTCAAAGAATTGATTTTGGATTCAACTCATTA
ACTACAATCGATTCAAGGTCATTTGGAAACAGCATGAGAACAAAAGTTCAATTTTTGGCT
GAAGGAAATTTCATTAATTCAATTGATCCAAATTGGTTTGATTCATCTGAAAATTTAAAC
ATGCTCATGTTGTTGCACAATTTTTGCATAAATGAAAATTTCAATGAAATTCAAAATAGT
CGTGAATTGGTTAGAAATCGATTGCAAAATTGTTTTAATAATTTTAATGGAAATCAAACG
ACAACAACAACAGCAACACCAGAGACAACAACAATTTTACCTGATGAACCTTTTATCAGA
TGCAATTACATAAATCCTTGGGTTGAAAGCGAAGTATATTGTGACATGGAGATATTCAAT
CCTTTGGGTCAAGATTTTAAAGAAATTGAAGGAACTTTACCGCACAATACAACTTATGAA
AATGTTTTCTGGTTGAGAATTGGCTTTCAATTAACGACAAATATTCCAAACGTTATTTGT
AGACAATACCCATATTTGATTGCAGTTATAGTCATGGGATCTAATGTAAATACTATCAAT
AATCAAACTTTTATTCATTGCAATAATCTCATGTGGATTGGTTTAGATTTGAATGAAATC
CATGAAATACCTGATAACACATTTGGCAGTAATTTAATAAATCTTCGAAGTGTTAATTTT
TATATGAATCAAATAAGAACTATCAGCTCTCGTTTTTTTGCTCCAGAAGCTTTGAAAAAC
ATTGATGAACTTCATGCTGATTTTAGCTTCATTGATAAAATTGATCCAAACTGGTTTGAT
GCTGCTATTCGACTCACTCGTTTAGATTTGAGAAATAATTATTGTGTAAATCAAGATTTT
CGAGACGTTCATTTAAATCGACAGCAAGTGAGAAATTCTTTAATGAATTGTTTTGAAAAT
TATGCTGGGCCACAAACTACAACCACAATGCCAGACACAACAACGATTTCACCTGAAATA
ACATTTATTCGATGTGATTACACCAATTTAGGCAACAATCAATTCTTATGCCAAATGACT
ATCAATAATCCAGATGGACGAAATGATTTTACGCAAATTGAAGGAAATTTACCAACTGGA
GTTACATATGAACAAGTCACACAAATATCAGTTCAAAATCAAATGACAACTAACATACCA
ACAATCATTTGTCATCAATTTTCTCGCCTAAATTCAATAAGAATTGAATTTTCTGAATTG
AGCATTTTAAATCAAAATTCATTTGAAGCTTGTCAAAATATTTCAGAAATTATTCTTTCA
CATAATAATCTAAATGAAATTGGCAATTATACATTTGGAAATCAATTAAGAAACCTTGAT
ATAATTGATTTAGGCTTCAATCAATTAAGTACTTTGAGTATGAGATCATTTGGTGCAGAA
TCAGTCAAAAATATTAGAACATTCAATGCTGATTTTAATTCTATTGTCTACATTGATATA
AATTGGTTTGATAATGCTTCAAGTCTCAATCGTCTTGATTTGCGCACGAATATATGCACA
GATCTTTTAGTTCCAAATCTTATTTGGTTTCGTGATACAATTAGAGATGTATTACATGAG
TGTTTTGATAATTATGCAAATCCCTTTTTTATAAGATGCCATTATACTTTATGGAGCCAA
AATGAGTATACTTGTTACATGCAAATAAGAAATTCTGAAGGTCGAGATGATTTTACTGCA
ATTGAAGGAACGCTTCCACCTGGTGCATCTTATGATCAAGTTGTTCGAGTTGTGATAAAT
TATTCGTTCACTACAATCATACCGAGTATAATTTGTGACTTATTTTCTCAACTAAGGATT
CTTGACATTTTAGGTTCAAGATTGTCTACTATAAATCACGAATCATTTGAATCATGCAAT
AATCTTGAACAAATTGATTTGGGCTCAAACCAAATAGCGCTTATTCCCGATAATACATTT
GGAAACAATTTGAGAAACTTAAAATCTATAGAGATTAGAAGCAATTTTCTGCAAGTAATA
AGTTCACGCTCTTTTGCTCATGAAATTTTAGCAAACTTAACATATTTTGGAGCTATTGAA
AATAAAATCGATGCAATTGATTCAAATTGGTTTGATTTCGCTAGAAATTTAGACACTTTA
TTATTAGTAATAAATATTTGTACTAATGAAAATTTTTGGGATGTTCAAAATAATCGACAA
CAAGTAAGAAATGCATTGACAAATTGCTTTAATAACTATGATTTGATTCAAACTACAACA
ATGTTGCCTACAACAACCACAGTTCAAATTCCAACGACAACAACAACAATTGAACCAATG
AATTCATACATTCGATGCAGTTATCAATTTTTGACGTCTGTTGATGTTTCTTGCATTATG
TCAATCTTTAATCCACAAGGAAATGATTTTGAAATTATTGAAGGAGATTTTCCACCAATT
GCAACCTTTAATCAACTTACATATATTTGGGCTGTTGGGCAACATACAACTAATATTCCT
TTAGTCATTTGCCGCCAATTTCCAAGATTGCTTTTCCTTGATATTTCTGCAAGTCGTTTG
ACAACAATTGATCAAAATTCATTTGCCAATTGCAACAATCTTCAATATATTTTACTTGCA
TCAAATGAAATTTCAACTATACCTGACAATACTTTTGGAAGCAATTTGATAAACATTTAC
AGCATTGATATGAGAGCTAATCAAATACAAATATTGAGTTCAAGATCATTTTCAACTCAA
GTTTTAAATAAAATCAGTCAATTTCAAGCTGATTCAAATGTCATCGACGCTATTGATGTA
AATTGGTTTGATTCTGCCACAAACATCACACGACTTTATTTGAACAATAATTTATGTGTA
AACTCAAACTTTAATGATGTTCATTTGAATCGACAAGTTGTTAGAAATGCTTTGAATGTT
TGTTTCAATAATTATAATATAACCGCAAATTAA
>g17431.t1 Gene=g17431 Length=1210
MKTLLLFAVFQFLILYGRGQEIKPRCDYSHQLFNYQCNFTINNINKRNNFGYTTGTHLNG
MINNDDESFIRCNYTISANIICDMRIFNPNGLEFYEIEGQLPPGINHNQVTVVVAINQNS
RNVPSIICQRFFNLATLAFQFSFVRDINQNAFANCHNLQALHLGFNDLQVVPSSVFRSLT
NLTLLDLGFNFIHRIYLDSFTGPSQLSTLLLDFNEIREIPYGTFNEHENIQRIDFGFNSL
TTIDSRSFGNSMRTKVQFLAEGNFINSIDPNWFDSSENLNMLMLLHNFCINENFNEIQNS
RELVRNRLQNCFNNFNGNQTTTTTATPETTTILPDEPFIRCNYINPWVESEVYCDMEIFN
PLGQDFKEIEGTLPHNTTYENVFWLRIGFQLTTNIPNVICRQYPYLIAVIVMGSNVNTIN
NQTFIHCNNLMWIGLDLNEIHEIPDNTFGSNLINLRSVNFYMNQIRTISSRFFAPEALKN
IDELHADFSFIDKIDPNWFDAAIRLTRLDLRNNYCVNQDFRDVHLNRQQVRNSLMNCFEN
YAGPQTTTTMPDTTTISPEITFIRCDYTNLGNNQFLCQMTINNPDGRNDFTQIEGNLPTG
VTYEQVTQISVQNQMTTNIPTIICHQFSRLNSIRIEFSELSILNQNSFEACQNISEIILS
HNNLNEIGNYTFGNQLRNLDIIDLGFNQLSTLSMRSFGAESVKNIRTFNADFNSIVYIDI
NWFDNASSLNRLDLRTNICTDLLVPNLIWFRDTIRDVLHECFDNYANPFFIRCHYTLWSQ
NEYTCYMQIRNSEGRDDFTAIEGTLPPGASYDQVVRVVINYSFTTIIPSIICDLFSQLRI
LDILGSRLSTINHESFESCNNLEQIDLGSNQIALIPDNTFGNNLRNLKSIEIRSNFLQVI
SSRSFAHEILANLTYFGAIENKIDAIDSNWFDFARNLDTLLLVINICTNENFWDVQNNRQ
QVRNALTNCFNNYDLIQTTTMLPTTTTVQIPTTTTTIEPMNSYIRCSYQFLTSVDVSCIM
SIFNPQGNDFEIIEGDFPPIATFNQLTYIWAVGQHTTNIPLVICRQFPRLLFLDISASRL
TTIDQNSFANCNNLQYILLASNEISTIPDNTFGSNLINIYSIDMRANQIQILSSRSFSTQ
VLNKISQFQADSNVIDAIDVNWFDSATNITRLYLNNNLCVNSNFNDVHLNRQVVRNALNV
CFNNYNITAN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 42 | g17431.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 105 | 340 | 3.3E-25 |
| 39 | g17431.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 341 | 569 | 3.7E-15 |
| 43 | g17431.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 574 | 787 | 5.3E-17 |
| 41 | g17431.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 788 | 983 | 1.1E-16 |
| 40 | g17431.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 984 | 1199 | 1.0E-18 |
| 9 | g17431.t1 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 144 | 350 | 3.0E-62 |
| 14 | g17431.t1 | PANTHER | PTHR45617 | - | 144 | 350 | 3.0E-62 |
| 8 | g17431.t1 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 414 | 564 | 3.0E-62 |
| 13 | g17431.t1 | PANTHER | PTHR45617 | - | 414 | 564 | 3.0E-62 |
| 7 | g17431.t1 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 612 | 741 | 3.0E-62 |
| 12 | g17431.t1 | PANTHER | PTHR45617 | - | 612 | 741 | 3.0E-62 |
| 6 | g17431.t1 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 825 | 942 | 3.0E-62 |
| 11 | g17431.t1 | PANTHER | PTHR45617 | - | 825 | 942 | 3.0E-62 |
| 10 | g17431.t1 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 1043 | 1179 | 3.0E-62 |
| 15 | g17431.t1 | PANTHER | PTHR45617 | - | 1043 | 1179 | 3.0E-62 |
| 3 | g17431.t1 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 146 | 279 | 1.9E-11 |
| 2 | g17431.t1 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 412 | 501 | 8.2E-5 |
| 5 | g17431.t1 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 628 | 737 | 1.6E-5 |
| 4 | g17431.t1 | Pfam | PF13306 | BspA type Leucine rich repeat region (6 copies) | 844 | 933 | 2.2E-7 |
| 1 | g17431.t1 | Pfam | PF13855 | Leucine rich repeat | 1073 | 1129 | 1.8E-7 |
| 45 | g17431.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 46 | g17431.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 47 | g17431.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 48 | g17431.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 19 | - |
| 44 | g17431.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 1210 | - |
| 28 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 155 | 178 | 9.1 |
| 29 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 179 | 202 | 8.4 |
| 36 | g17431.t1 | SMART | SM00365 | LRR_sd22_2 | 179 | 199 | 15.0 |
| 22 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 204 | 226 | 26.0 |
| 33 | g17431.t1 | SMART | SM00365 | LRR_sd22_2 | 227 | 248 | 260.0 |
| 26 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 228 | 250 | 290.0 |
| 21 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 427 | 450 | 270.0 |
| 30 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 452 | 475 | 8.0 |
| 27 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 651 | 674 | 140.0 |
| 20 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 676 | 699 | 5.6 |
| 37 | g17431.t1 | SMART | SM00365 | LRR_sd22_2 | 676 | 707 | 150.0 |
| 31 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 835 | 858 | 330.0 |
| 25 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 859 | 882 | 7.8 |
| 35 | g17431.t1 | SMART | SM00365 | LRR_sd22_2 | 859 | 879 | 240.0 |
| 32 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 884 | 907 | 12.0 |
| 34 | g17431.t1 | SMART | SM00365 | LRR_sd22_2 | 884 | 905 | 190.0 |
| 23 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 1067 | 1090 | 49.0 |
| 24 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 1091 | 1114 | 16.0 |
| 19 | g17431.t1 | SMART | SM00369 | LRR_typ_2 | 1116 | 1139 | 140.0 |
| 18 | g17431.t1 | SUPERFAMILY | SSF52058 | L domain-like | 102 | 768 | 3.53E-27 |
| 16 | g17431.t1 | SUPERFAMILY | SSF52058 | L domain-like | 604 | 953 | 3.66E-25 |
| 17 | g17431.t1 | SUPERFAMILY | SSF52058 | L domain-like | 1036 | 1178 | 2.31E-16 |
| 38 | g17431.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
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.
