Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

Parent gene

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.t7 TSS g602.t7 4434335 4434335
chr_3 g602 g602.t7 isoform g602.t7 4434385 4435780
chr_3 g602 g602.t7 exon g602.t7.exon1 4434385 4434424
chr_3 g602 g602.t7 exon g602.t7.exon2 4434520 4434596
chr_3 g602 g602.t7 exon g602.t7.exon3 4434886 4435168
chr_3 g602 g602.t7 cds g602.t7.CDS1 4434989 4435168
chr_3 g602 g602.t7 exon g602.t7.exon4 4435272 4435780
chr_3 g602 g602.t7 cds g602.t7.CDS2 4435272 4435778
chr_3 g602 g602.t7 TTS g602.t7 NA NA

Sequences

>g602.t7 Gene=g602 Length=909
ATGAAGATTTTGTTCTCAATTATTTGTACTTTTTTGTTCGCGTCTATTGTATCTAGTTCC
GTTATATTGGGACGAGAAAAATGCACATACGGGCCCTCATATTGGTGTAATAACTTAAAA
TGCAAAAAATTGCGGAGCAGTTAAACACTGTATTAAAACAGTTTGGGAAAAACAACATGT
ACCGGAAGACACTGATTCTATTTGCAAAATTTGTCTTGACATGGTAACCCAAGCCAGAGA
TCAACTCGAAAGCAATGAAACTCAAGAAGAGTTGAAAGAAGTTTTCGATGGTTCTTGCGA
TTTGATACCGATAAAAGTAGTAAAAACGGAATGCAAACGTTTGGCTGATGATTTCATACC
AGAACTTGTTGAGGCACTTGCTTCTCAAATGAATCCACAGGTCGTTTGTTCTACAGCTGG
ACTTTGTAATAATGCAAAGATTGATGCATTATTGGAAGAATATGAAATGCAGAAGAAAAA
TAATTTATTAAGTTGCAACCAATGTAACAACATTGGAGAATTGATCACTCAAAAATTCCA
TACATCATCTCGTGATCAAGTTCTAGATGGTTTCTTGAGTGCCTGCGGTCGTCTTTCATC
GTTTTCTGATGCATGTTCTAGTATCATTCTGACTTATTTCAACGAAATCTATGAAGAACT
TTCGAGAAATCTAAATTCTGATAGTATTTGTCATATATCTGGCGTATGCGCAAGCAAATA
TCATAATCATGCATCAGCAGAAGTTGAAATTGAAGTAAAATCAAATGTTGGAGTACTTAA
GAATAAAGAGCTCAAAGATGATATTCCTTGTGAATTATGTGAACAGTTGGTCAAACATTT
AAGTGATATTCTTGTTGCAAATACAACTGAAACTGAATTTAAAAGCGTCCTTCAAGGTCT
TTGTTCACA

>g602.t7 Gene=g602 Length=229
MVTQARDQLESNETQEELKEVFDGSCDLIPIKVVKTECKRLADDFIPELVEALASQMNPQ
VVCSTAGLCNNAKIDALLEEYEMQKKNNLLSCNQCNNIGELITQKFHTSSRDQVLDGFLS
ACGRLSSFSDACSSIILTYFNEIYEELSRNLNSDSICHISGVCASKYHNHASAEVEIEVK
SNVGVLKNKELKDDIPCELCEQLVKHLSDILVANTTETEFKSVLQGLCS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g602.t7 Gene3D G3DSA:1.10.225.10 Saposin 1 72 0.0000000
12 g602.t7 Gene3D G3DSA:1.10.225.10 Saposin 88 172 0.0000000
13 g602.t7 Gene3D G3DSA:1.10.225.10 Saposin 191 229 0.0000035
5 g602.t7 PANTHER PTHR11480 SAPOSIN-RELATED 1 229 0.0000000
6 g602.t7 PANTHER PTHR11480:SF84 BCDNA.GH08312 1 229 0.0000000
1 g602.t7 Pfam PF05184 Saposin-like type B, region 1 1 30 0.0000036
3 g602.t7 Pfam PF03489 Saposin-like type B, region 2 36 69 0.0000000
4 g602.t7 Pfam PF03489 Saposin-like type B, region 2 131 163 0.0000770
2 g602.t7 Pfam PF05184 Saposin-like type B, region 1 196 229 0.0000004
16 g602.t7 ProSiteProfiles PS50015 Saposin B type domain profile. 1 73 16.6310000
14 g602.t7 ProSiteProfiles PS50015 Saposin B type domain profile. 88 167 11.7330000
15 g602.t7 ProSiteProfiles PS50015 Saposin B type domain profile. 193 229 9.2520000
10 g602.t7 SMART SM00741 sapb_4 1 69 0.0000000
9 g602.t7 SMART SM00741 sapb_4 90 163 0.0000120
8 g602.t7 SUPERFAMILY SSF47862 Saposin 2 71 0.0000000
7 g602.t7 SUPERFAMILY SSF47862 Saposin 128 229 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.

Raw TPM values