General information for g17629.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g17629 is located on HiC_scaffold_20: 1663..6777 (- 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 |
|---|---|---|---|---|---|---|
| HiC_scaffold_20 | g17629 | g17629.t1 | TTS | g17629.t1 | 1555 | 1555 |
| HiC_scaffold_20 | g17629 | g17629.t1 | isoform | g17629.t1 | 1663 | 6777 |
| HiC_scaffold_20 | g17629 | g17629.t1 | exon | g17629.t1.exon1 | 1663 | 1829 |
| HiC_scaffold_20 | g17629 | g17629.t1 | cds | g17629.t1.CDS1 | 1663 | 1829 |
| HiC_scaffold_20 | g17629 | g17629.t1 | exon | g17629.t1.exon2 | 1914 | 2120 |
| HiC_scaffold_20 | g17629 | g17629.t1 | cds | g17629.t1.CDS2 | 1914 | 2120 |
| HiC_scaffold_20 | g17629 | g17629.t1 | exon | g17629.t1.exon3 | 4110 | 4141 |
| HiC_scaffold_20 | g17629 | g17629.t1 | cds | g17629.t1.CDS3 | 4110 | 4141 |
| HiC_scaffold_20 | g17629 | g17629.t1 | exon | g17629.t1.exon4 | 4347 | 5241 |
| HiC_scaffold_20 | g17629 | g17629.t1 | cds | g17629.t1.CDS4 | 4347 | 5241 |
| HiC_scaffold_20 | g17629 | g17629.t1 | TSS | g17629.t1 | NA | NA |
Sequences
>g17629.t1 Gene=g17629 Length=1301
TTCTTTATTTGTATATAAATCAAATTGAAAATTTAAATGGAAAGGAATTTGAAAATCTTG
AAAATCTTCAGTATCTTCATTTGGCTTACAATTTAATAAATTTCATCGCTTCTGACAGTT
TTTCAAATCTTCAAAGTCTTCAATATTTAAATTTAAATAACAACAAAATCACAAGTTTGC
AACCAAATTTATTTAAAAATTCTATAAAATTACAATTTGTTTATTTGGATCACAATTATC
TTCAAGATGTTCCACTGGAAATTTTTAAAGAAAATTCCAATTTGACAATTTTGTCAATTT
ATTCAAACAATCTGAGAACTTTGAATCGAAAATCTTTTGGTGAACTAAAAAATTTAATTT
TGATGGATTTTTCTGAAAATTTTGTTAATGCCGTTGATCAAAATATCATCAATGAAGCTG
AAAATTTAGTAATTTTATATTTCATGGCAAATTTTTGTGCGAGTGGAATTTTTATAAGTT
TTCAAAGAGAACTTGAAAAATGTTTTATGAATTATCAATATTATTTTGACACAATTACCA
ATTCAAATGAGAATTATCAATTCCATTTGGCATCAAATTTAGGAATAAATTTACGAGTTC
AAACAAATGATGAAGTTCATGTTGCATTAACACCTTTCAACTTCCCATGGACTCCAATGA
TTGAAATTTTCATCGGTGCTGCAAATAACACAAGGTCAATCATTAGAAGAAATCAAGAAA
CTGATGTAGTTACAGTTCCAACTCCAGGAATCATCAGAGCTGATCAATGGAATGGATTTA
GAATCACTTGGGCAAATCATGCAATCCTTGTATGGAGAGAAGGTGAAGAATGGCCTTTTA
TGGGTTTCACAATGACTGACTTTTTCCCTGTCAATTTTTATGGATTAAGGTCAATAAATA
CTGATGCAATTTGGGGTCTACAACCTACAAGATCACAACAATATTACGAATGGATTGGTT
GGCCAGTGACTTTGATTGGATGGGGACGTGATAATACTGGAGCTGGTGCAATTCATAAAC
AATTTGCACAATTTAGAGTTCTTGCTAATAGTGTATGCAGTACAAGGTTTACTGAATATG
AACTTTGCTATGTTGATGATGGTACTATGAGTATGAGTCAACCTGGTGATTCTGGTGGGC
CATTAATTGCATTTGAGAATGGAATTATGACACAAGTTGGTGTACATGCAGGTCGTAGAA
CTGTCAGCGGCATCACTTTCCATAGTGCAGTACGTCTGTCACACGCCTTTTTCTTGAACT
GGATCGAAACATATTCCGGAATAAGAATTCGTGATAATTGA
>g17629.t1 Gene=g17629 Length=432
LYLYINQIENLNGKEFENLENLQYLHLAYNLINFIASDSFSNLQSLQYLNLNNNKITSLQ
PNLFKNSIKLQFVYLDHNYLQDVPLEIFKENSNLTILSIYSNNLRTLNRKSFGELKNLIL
MDFSENFVNAVDQNIINEAENLVILYFMANFCASGIFISFQRELEKCFMNYQYYFDTITN
SNENYQFHLASNLGINLRVQTNDEVHVALTPFNFPWTPMIEIFIGAANNTRSIIRRNQET
DVVTVPTPGIIRADQWNGFRITWANHAILVWREGEEWPFMGFTMTDFFPVNFYGLRSINT
DAIWGLQPTRSQQYYEWIGWPVTLIGWGRDNTGAGAIHKQFAQFRVLANSVCSTRFTEYE
LCYVDDGTMSMSQPGDSGGPLIAFENGIMTQVGVHAGRRTVSGITFHSAVRLSHAFFLNW
IETYSGIRIRDN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g17629.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 1 | 242 | 3.8E-31 |
| 13 | g17629.t1 | Gene3D | G3DSA:2.40.10.10 | - | 302 | 428 | 1.4E-10 |
| 4 | g17629.t1 | PANTHER | PTHR45617:SF69 | SI:DKEY-1J5.4 | 1 | 175 | 1.6E-24 |
| 5 | g17629.t1 | PANTHER | PTHR45617 | - | 1 | 175 | 1.6E-24 |
| 1 | g17629.t1 | Pfam | PF13855 | Leucine rich repeat | 21 | 80 | 4.7E-13 |
| 3 | g17629.t1 | Pfam | PF12248 | Farnesoic acid 0-methyl transferase | 206 | 300 | 1.2E-20 |
| 2 | g17629.t1 | Pfam | PF00089 | Trypsin | 318 | 398 | 1.5E-6 |
| 20 | g17629.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 141 | - |
| 21 | g17629.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 142 | 160 | - |
| 19 | g17629.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 161 | 432 | - |
| 17 | g17629.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 1 | 18 | 4.955 |
| 16 | g17629.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 21 | 42 | 7.042 |
| 15 | g17629.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 45 | 66 | 8.328 |
| 18 | g17629.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 69 | 90 | 5.956 |
| 14 | g17629.t1 | ProSiteProfiles | PS51450 | Leucine-rich repeat profile. | 93 | 114 | 5.394 |
| 9 | g17629.t1 | SMART | SM00369 | LRR_typ_2 | 19 | 42 | 0.036 |
| 11 | g17629.t1 | SMART | SM00369 | LRR_typ_2 | 43 | 66 | 1.6E-4 |
| 10 | g17629.t1 | SMART | SM00369 | LRR_typ_2 | 68 | 90 | 180.0 |
| 8 | g17629.t1 | SMART | SM00369 | LRR_typ_2 | 92 | 114 | 130.0 |
| 6 | g17629.t1 | SUPERFAMILY | SSF52058 | L domain-like | 1 | 150 | 1.56E-29 |
| 7 | g17629.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 314 | 425 | 1.34E-13 |
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:0004252 | serine-type endopeptidase activity | MF |
| GO:0006508 | proteolysis | BP |
| 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