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.t9 TSS g602.t9 4434335 4434335
chr_3 g602 g602.t9 isoform g602.t9 4434385 4435940
chr_3 g602 g602.t9 exon g602.t9.exon1 4434385 4435172
chr_3 g602 g602.t9 exon g602.t9.exon2 4435272 4435940
chr_3 g602 g602.t9 cds g602.t9.CDS1 4435338 4435940
chr_3 g602 g602.t9 TTS g602.t9 NA NA

Sequences

>g602.t9 Gene=g602 Length=1457
ATGAAGATTTTGTTCTCAATTATTTGTACTTTTTTGTTCGGTAAGTTGAAAACAAAGTTA
TAATTTCAAATTCTTACAAAATAATTTGATGCGTAATTAAATTATTGTATTTTAATCTTT
TTATCCTTATATTAGCGTCTATTGTATCTAGTTCCGTTATATTGGGACGAGAAAAATGCA
CATACGGGCCCTCATATTGGTGTAATAACTTAGTGTAAGTACATTTTTTTTTATCGCTTA
TTCGTCAATTTTTGATTTACTGGTCATAATGAATCATATAACAACAATCACTAATTGAAT
ATATAATAATACATTTTAGTTTTGTATGACTAAAATGACATGATAATTCGAATTATTTGG
GCAAATTTTTATTTGTAAGGAAAAAACGAATAATTTTATCACATATACTGATAGGTCACA
TTGGGTTATCGTTGTACTTGTTTTGCTCTCTTTGTTACATTTTTTTACTGATGATGATCA
TTATTTTTTTTAATTCTCTAGAAATGCAAAAAATTGCGGAGCAGTTAAACACTGTATTAA
AACAGTTTGGGAAAAACAACATGTACCGGAAGACACTGATTCTATTTGCAAAATTTGTCT
TGACATGGTAACCCAAGCCAGAGATCAACTCGAAAGCAATGAAACTCAAGAAGAGTTGAA
AGAAGTTTTCGATGGTTCTTGCGATTTGATACCGATAAAAGTAGTAAAAACGGAATGCAA
ACGTTTGGCTGATGATTTCATACCAGAACTTGTTGAGGCACTTGCTTCTCAAATGAATCC
ACAGGCAAGTCGTTTGTTCTACAGCTGGACTTTGTAATAATGCAAAGATTGATGCATTAT
TGGAAGAATATGAAATGCAGAAGAAAAATAATTTATTAAGTTGCAACCAATGTAACAACA
TTGGAGAATTGATCACTCAAAAATTCCATACATCATCTCGTGATCAAGTTCTAGATGGTT
TCTTGAGTGCCTGCGGTCGTCTTTCATCGTTTTCTGATGCATGTTCTAGTATCATTCTGA
CTTATTTCAACGAAATCTATGAAGAACTTTCGAGAAATCTAAATTCTGATAGTATTTGTC
ATATATCTGGCGTATGCGCAAGCAAATATCATAATCATGCATCAGCAGAAGTTGAAATTG
AAGTAAAATCAAATGTTGGAGTACTTAAGAATAAAGAGCTCAAAGATGATATTCCTTGTG
AATTATGTGAACAGTTGGTCAAACATTTAAGTGATATTCTTGTTGCAAATACAACTGAAA
CTGAATTTAAAAGCGTCCTTCAAGGTCTTTGTTCACAAACAAAAGGATTCAAGAGCGAAT
GTTTAGAACTGGTAAATCAATATTATGCAATTATTTACGAGTCTCTCGTTAATAATCTCG
ACGCAAATGGAGCTTGCTTTTTAATTGGAGTATGTCGCAAGGGAGATAATAATCATCAAG
TCACTCCACACATGCCA

>g602.t9 Gene=g602 Length=201
MQKKNNLLSCNQCNNIGELITQKFHTSSRDQVLDGFLSACGRLSSFSDACSSIILTYFNE
IYEELSRNLNSDSICHISGVCASKYHNHASAEVEIEVKSNVGVLKNKELKDDIPCELCEQ
LVKHLSDILVANTTETEFKSVLQGLCSQTKGFKSECLELVNQYYAIIYESLVNNLDANGA
CFLIGVCRKGDNNHQVTPHMP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g602.t9 Gene3D G3DSA:1.10.225.10 Saposin 6 90 0.0000000
13 g602.t9 Gene3D G3DSA:1.10.225.10 Saposin 109 189 0.0000000
4 g602.t9 PANTHER PTHR11480 SAPOSIN-RELATED 10 94 0.0000000
5 g602.t9 PANTHER PTHR11480 SAPOSIN-RELATED 108 194 0.0000000
8 g602.t9 PRINTS PR01797 Saposin signature 57 75 0.0000330
6 g602.t9 PRINTS PR01797 Saposin signature 112 134 0.0000330
7 g602.t9 PRINTS PR01797 Saposin signature 165 188 0.0000330
3 g602.t9 Pfam PF03489 Saposin-like type B, region 2 49 81 0.0000630
1 g602.t9 Pfam PF05184 Saposin-like type B, region 1 114 148 0.0000002
2 g602.t9 Pfam PF03489 Saposin-like type B, region 2 155 187 0.0000036
15 g602.t9 ProSiteProfiles PS50015 Saposin B type domain profile. 6 85 11.7330000
16 g602.t9 ProSiteProfiles PS50015 Saposin B type domain profile. 111 191 15.9290000
12 g602.t9 SMART SM00741 sapb_4 8 81 0.0000120
11 g602.t9 SMART SM00741 sapb_4 113 187 0.0000000
9 g602.t9 SUPERFAMILY SSF47862 Saposin 8 85 0.0000000
10 g602.t9 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.

Raw TPM values