General information for g602.t23
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g602 is located on chr_3: 4437608..4441569 (+ 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_3 | g602 | g602.t23 | isoform | g602.t23 | 4436567 | 4437608 |
| chr_3 | g602 | g602.t23 | exon | g602.t23.exon1 | 4436567 | 4436873 |
| chr_3 | g602 | g602.t23 | cds | g602.t23.CDS1 | 4436799 | 4436873 |
| chr_3 | g602 | g602.t23 | exon | g602.t23.exon2 | 4437258 | 4437497 |
| chr_3 | g602 | g602.t23 | cds | g602.t23.CDS2 | 4437258 | 4437497 |
| chr_3 | g602 | g602.t23 | exon | g602.t23.exon3 | 4437561 | 4437608 |
| chr_3 | g602 | g602.t23 | cds | g602.t23.CDS3 | 4437561 | 4437608 |
| chr_3 | g602 | g602.t23 | TTS | g602.t23 | 4437776 | 4437776 |
| chr_3 | g602 | g602.t23 | TSS | g602.t23 | NA | NA |
Sequences
>g602.t23 Gene=g602 Length=595
GTTGCTCTCTGATTTCACTCCAAAAGACATTTGCATTGATTTGCAATTGTGCACAAGAAT
TCAAGATGAAATAAAAGTTGGAATTGAAAAAGTCGAACATATTCCAAACATCAAGACAAA
TGAAATTCCTGATTATACTATCAACGGTCAATATTTTACAAGTTCTGATTCTGGAGAGTG
CTTCTTGTGTACAACCGTTTTAAGTAACGCTGAGAGCAAAATTACTCATGGAATGACTAA
GAATCAAATTGAAGATATTTTATTACGCGAATGCTCAGTTTATTATATTTATGAAGGCGT
CTGCGATGCTGTTGAGAATATTTGCTCAAAAATGCCGAAATCTGTTTCTAAGCAATGTAC
AAAATTCGTTGATCAATACAGTGAACTCATCATTGCATTGATTGATACTGTACCACCCAA
AGAAATTTGTTCACAAATGGGCTTATGTACAGCTGTAAAAAAACAAATGCACCTCGTGGG
TGCAAATGAGTGCACTTATGGTCCAACTCACTTTTGTTCTGATATGAAAATTGCTGAAAA
ATGCAAGGCTACCAAATACTGTAAGGAAAAGAAGTTGGGAAAATTTTCAGTTTGA
>g602.t23 Gene=g602 Length=120
MTKNQIEDILLRECSVYYIYEGVCDAVENICSKMPKSVSKQCTKFVDQYSELIIALIDTV
PPKEICSQMGLCTAVKKQMHLVGANECTYGPTHFCSDMKIAEKCKATKYCKEKKLGKFSV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g602.t23 | Gene3D | G3DSA:1.10.225.10 | Saposin | 17 | 74 | 0.0000000 |
| 3 | g602.t23 | PANTHER | PTHR11480:SF70 | PROSAPOSIN | 23 | 112 | 0.0000000 |
| 4 | g602.t23 | PANTHER | PTHR11480 | SAPOSIN-RELATED | 23 | 112 | 0.0000000 |
| 5 | g602.t23 | PRINTS | PR01797 | Saposin signature | 29 | 51 | 0.0000006 |
| 6 | g602.t23 | PRINTS | PR01797 | Saposin signature | 81 | 102 | 0.0000006 |
| 1 | g602.t23 | Pfam | PF03489 | Saposin-like type B, region 2 | 40 | 72 | 0.0000000 |
| 2 | g602.t23 | Pfam | PF02199 | Saposin A-type domain | 85 | 113 | 0.0000000 |
| 12 | g602.t23 | ProSiteProfiles | PS50015 | Saposin B type domain profile. | 1 | 76 | 13.4490000 |
| 11 | g602.t23 | ProSiteProfiles | PS51110 | Saposin A-type domain profile. | 80 | 120 | 10.2200000 |
| 9 | g602.t23 | SMART | SM00741 | sapb_4 | 4 | 72 | 0.0002100 |
| 8 | g602.t23 | SMART | SM00162 | sapA_2 | 83 | 116 | 0.0074000 |
| 7 | g602.t23 | SUPERFAMILY | SSF47862 | Saposin | 38 | 105 | 0.0000000 |
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:0006665 | sphingolipid metabolic process | BP |
| GO:0005764 | lysosome | CC |
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.
