General information for g602.t6
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.t6 | TSS | g602.t6 | 4434335 | 4434335 |
| chr_3 | g602 | g602.t6 | isoform | g602.t6 | 4434385 | 4435780 |
| chr_3 | g602 | g602.t6 | exon | g602.t6.exon1 | 4434385 | 4434424 |
| chr_3 | g602 | g602.t6 | exon | g602.t6.exon2 | 4434520 | 4434602 |
| chr_3 | g602 | g602.t6 | exon | g602.t6.exon3 | 4434886 | 4435172 |
| chr_3 | g602 | g602.t6 | exon | g602.t6.exon4 | 4435272 | 4435780 |
| chr_3 | g602 | g602.t6 | cds | g602.t6.CDS1 | 4435338 | 4435778 |
| chr_3 | g602 | g602.t6 | TTS | g602.t6 | NA | NA |
Sequences
>g602.t6 Gene=g602 Length=919
ATGAAGATTTTGTTCTCAATTATTTGTACTTTTTTGTTCGCGTCTATTGTATCTAGTTCC
GTTATATTGGGACGAGAAAAATGCACATACGGGCCCTCATATTGGTGTAATAACTTAGTG
TAAAAATGCAAAAAATTGCGGAGCAGTTAAACACTGTATTAAAACAGTTTGGGAAAAACA
ACATGTACCGGAAGACACTGATTCTATTTGCAAAATTTGTCTTGACATGGTAACCCAAGC
CAGAGATCAACTCGAAAGCAATGAAACTCAAGAAGAGTTGAAAGAAGTTTTCGATGGTTC
TTGCGATTTGATACCGATAAAAGTAGTAAAAACGGAATGCAAACGTTTGGCTGATGATTT
CATACCAGAACTTGTTGAGGCACTTGCTTCTCAAATGAATCCACAGGCAAGTCGTTTGTT
CTACAGCTGGACTTTGTAATAATGCAAAGATTGATGCATTATTGGAAGAATATGAAATGC
AGAAGAAAAATAATTTATTAAGTTGCAACCAATGTAACAACATTGGAGAATTGATCACTC
AAAAATTCCATACATCATCTCGTGATCAAGTTCTAGATGGTTTCTTGAGTGCCTGCGGTC
GTCTTTCATCGTTTTCTGATGCATGTTCTAGTATCATTCTGACTTATTTCAACGAAATCT
ATGAAGAACTTTCGAGAAATCTAAATTCTGATAGTATTTGTCATATATCTGGCGTATGCG
CAAGCAAATATCATAATCATGCATCAGCAGAAGTTGAAATTGAAGTAAAATCAAATGTTG
GAGTACTTAAGAATAAAGAGCTCAAAGATGATATTCCTTGTGAATTATGTGAACAGTTGG
TCAAACATTTAAGTGATATTCTTGTTGCAAATACAACTGAAACTGAATTTAAAAGCGTCC
TTCAAGGTCTTTGTTCACA
>g602.t6 Gene=g602 Length=147
MQKKNNLLSCNQCNNIGELITQKFHTSSRDQVLDGFLSACGRLSSFSDACSSIILTYFNE
IYEELSRNLNSDSICHISGVCASKYHNHASAEVEIEVKSNVGVLKNKELKDDIPCELCEQ
LVKHLSDILVANTTETEFKSVLQGLCS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g602.t6 | Gene3D | G3DSA:1.10.225.10 | Saposin | 6 | 90 | 0.0000000 |
| 5 | g602.t6 | Gene3D | G3DSA:1.10.225.10 | Saposin | 109 | 147 | 0.0000017 |
| 2 | g602.t6 | Pfam | PF03489 | Saposin-like type B, region 2 | 49 | 81 | 0.0000380 |
| 1 | g602.t6 | Pfam | PF05184 | Saposin-like type B, region 1 | 114 | 147 | 0.0000003 |
| 8 | g602.t6 | ProSiteProfiles | PS50015 | Saposin B type domain profile. | 6 | 85 | 11.7330000 |
| 7 | g602.t6 | ProSiteProfiles | PS50015 | Saposin B type domain profile. | 111 | 147 | 9.2520000 |
| 4 | g602.t6 | SMART | SM00741 | sapb_4 | 8 | 81 | 0.0000120 |
| 3 | g602.t6 | SUPERFAMILY | SSF47862 | Saposin | 46 | 147 | 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:0006629 | lipid metabolic process | BP |
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