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.t21 TSS g602.t21 4434335 4434335
chr_3 g602 g602.t21 isoform g602.t21 4435309 4436142
chr_3 g602 g602.t21 exon g602.t21.exon1 4435309 4436142
chr_3 g602 g602.t21 cds g602.t21.CDS1 4435338 4436141
chr_3 g602 g602.t21 TTS g602.t21 4437034 4437034

Sequences

>g602.t21 Gene=g602 Length=834
AGATTGATGCATTATTGGAAGAATATGAAATGCAGAAGAAAAATAATTTATTAAGTTGCA
ACCAATGTAACAACATTGGAGAATTGATCACTCAAAAATTCCATACATCATCTCGTGATC
AAGTTCTAGATGGTTTCTTGAGTGCCTGCGGTCGTCTTTCATCGTTTTCTGATGCATGTT
CTAGTATCATTCTGACTTATTTCAACGAAATCTATGAAGAACTTTCGAGAAATCTAAATT
CTGATAGTATTTGTCATATATCTGGCGTATGCGCAAGCAAATATCATAATCATGCATCAG
CAGAAGTTGAAATTGAAGTAAAATCAAATGTTGGAGTACTTAAGAATAAAGAGCTCAAAG
ATGATATTCCTTGTGAATTATGTGAACAGTTGGTCAAACATTTAAGTGATATTCTTGTTG
CAAATACAACTGAAACTGAATTTAAAAGCGTCCTTCAAGGTCTTTGTTCACAAACAAAAG
GATTCAAGAGCGAATGTTTAGAACTGGTAAATCAATATTATGCAATTATTTACGAGTCTC
TCGTTAATAATCTCGACGCAAATGGAGCTTGCTTTTTAATTGGAGTATGTCGCAAGGGAG
ATAATAATCATCAAGTCACTCCACACATGCCATTATTGCCTACTAATCAAAAGAATATAC
CAAAGCGCAATCGATTAGGAGAGAATGAAAAATCCTATACAAATGAGCAAATCAAGAAAA
TGATTTTGCCTATTGATCAATTAATGGGAGCTAAATCAAACCTTGATTTGGTTGATGGTG
GTGAAAAGTGTACTCTTTGTCAATATTTTCTTCATTTTGTTCAAGAAGAATTAA

>g602.t21 Gene=g602 Length=268
MQKKNNLLSCNQCNNIGELITQKFHTSSRDQVLDGFLSACGRLSSFSDACSSIILTYFNE
IYEELSRNLNSDSICHISGVCASKYHNHASAEVEIEVKSNVGVLKNKELKDDIPCELCEQ
LVKHLSDILVANTTETEFKSVLQGLCSQTKGFKSECLELVNQYYAIIYESLVNNLDANGA
CFLIGVCRKGDNNHQVTPHMPLLPTNQKNIPKRNRLGENEKSYTNEQIKKMILPIDQLMG
AKSNLDLVDGGEKCTLCQYFLHFVQEEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g602.t21 Gene3D G3DSA:1.10.225.10 Saposin 6 90 0.0000000
13 g602.t21 Gene3D G3DSA:1.10.225.10 Saposin 109 189 0.0000000
4 g602.t21 PANTHER PTHR11480 SAPOSIN-RELATED 2 197 0.0000000
5 g602.t21 PANTHER PTHR11480:SF84 BCDNA.GH08312 2 197 0.0000000
8 g602.t21 PRINTS PR01797 Saposin signature 57 75 0.0000640
6 g602.t21 PRINTS PR01797 Saposin signature 112 134 0.0000640
7 g602.t21 PRINTS PR01797 Saposin signature 165 188 0.0000640
3 g602.t21 Pfam PF03489 Saposin-like type B, region 2 49 81 0.0000960
1 g602.t21 Pfam PF05184 Saposin-like type B, region 1 114 148 0.0000003
2 g602.t21 Pfam PF03489 Saposin-like type B, region 2 155 187 0.0000056
15 g602.t21 ProSiteProfiles PS50015 Saposin B type domain profile. 6 85 11.7330000
16 g602.t21 ProSiteProfiles PS50015 Saposin B type domain profile. 111 191 15.9290000
12 g602.t21 SMART SM00741 sapb_4 8 81 0.0000120
11 g602.t21 SMART SM00741 sapb_4 113 187 0.0000000
9 g602.t21 SUPERFAMILY SSF47862 Saposin 8 85 0.0000000
10 g602.t21 SUPERFAMILY SSF47862 Saposin 111 188 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
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