Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Prosaposin.

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.t14 TSS g602.t14 4434335 4434335
chr_3 g602 g602.t14 isoform g602.t14 4434385 4436567
chr_3 g602 g602.t14 exon g602.t14.exon1 4434385 4434598
chr_3 g602 g602.t14 exon g602.t14.exon2 4434886 4435172
chr_3 g602 g602.t14 exon g602.t14.exon3 4435272 4436567
chr_3 g602 g602.t14 cds g602.t14.CDS1 4435338 4436567
chr_3 g602 g602.t14 TTS g602.t14 4437034 4437034

Sequences

>g602.t14 Gene=g602 Length=1797
ATGAAGATTTTGTTCTCAATTATTTGTACTTTTTTGTTCGGTAAGTTGAAAACAAAGTTA
TAATTTCAAATTCTTACAAAATAATTTGATGCGTAATTAAATTATTGTATTTTAATCTTT
TTATCCTTATATTAGCGTCTATTGTATCTAGTTCCGTTATATTGGGACGAGAAAAATGCA
CATACGGGCCCTCATATTGGTGTAATAACTTAGTAAATGCAAAAAATTGCGGAGCAGTTA
AACACTGTATTAAAACAGTTTGGGAAAAACAACATGTACCGGAAGACACTGATTCTATTT
GCAAAATTTGTCTTGACATGGTAACCCAAGCCAGAGATCAACTCGAAAGCAATGAAACTC
AAGAAGAGTTGAAAGAAGTTTTCGATGGTTCTTGCGATTTGATACCGATAAAAGTAGTAA
AAACGGAATGCAAACGTTTGGCTGATGATTTCATACCAGAACTTGTTGAGGCACTTGCTT
CTCAAATGAATCCACAGGCAAGTCGTTTGTTCTACAGCTGGACTTTGTAATAATGCAAAG
ATTGATGCATTATTGGAAGAATATGAAATGCAGAAGAAAAATAATTTATTAAGTTGCAAC
CAATGTAACAACATTGGAGAATTGATCACTCAAAAATTCCATACATCATCTCGTGATCAA
GTTCTAGATGGTTTCTTGAGTGCCTGCGGTCGTCTTTCATCGTTTTCTGATGCATGTTCT
AGTATCATTCTGACTTATTTCAACGAAATCTATGAAGAACTTTCGAGAAATCTAAATTCT
GATAGTATTTGTCATATATCTGGCGTATGCGCAAGCAAATATCATAATCATGCATCAGCA
GAAGTTGAAATTGAAGTAAAATCAAATGTTGGAGTACTTAAGAATAAAGAGCTCAAAGAT
GATATTCCTTGTGAATTATGTGAACAGTTGGTCAAACATTTAAGTGATATTCTTGTTGCA
AATACAACTGAAACTGAATTTAAAAGCGTCCTTCAAGGTCTTTGTTCACAAACAAAAGGA
TTCAAGAGCGAATGTTTAGAACTGGTAAATCAATATTATGCAATTATTTACGAGTCTCTC
GTTAATAATCTCGACGCAAATGGAGCTTGCTTTTTAATTGGAGTATGTCGCAAGGGAGAT
AATAATCATCAAGTCACTCCACACATGCCATTATTGCCTACTAATCAAAAGAATATACCA
AAGCGCAATCGATTAGGAGAGAATGAAAAATCCTATACAAATGAGCAAATCAAGAAAATG
ATTTTGCCTATTGATCAATTAATGGGAGCTAAATCAAACCTTGATTTGGTTGATGGTGGT
GAAAAGTGTACTCTTTGTCAATATTTTCTTCATTTTGTTCAAGAAGAATTAAGTGATGCA
AAAAATGAAGACGAAATTAAAGAGATAGTAGGAAAAACTTGTGACAAATTCTCATCCGTA
ATTCGTTCAAATTGTCATCAATTTGTTAATTTATATGGAGATGCAATAATTGCTTTATTA
GTTCAAAGCATTGATCCTCGCGATGTATGTCCCAATTTAAAATTATGTCCGAAATTCATG
AATCAAGACGTTGATGTTTTTGCACCTTATCCGATCGTTGAAGTAAATGAATCCAGCAAA
ACGCAATGTCCATTGTGTGTTCTTGTTGTAAAAGAGGCTCAAGATTATATAAAAAGTGAG
AAAACTACTGAAACCGTAAAGAAAGCACTAGAAAGAGCGTGTTCGAGACTCCCAGCAAAA
TTACAATTGCAATGTAAAGATTTTGTGGAAACTTATTACGATGAATTACTTCAAAAG

>g602.t14 Gene=g602 Length=410
MQKKNNLLSCNQCNNIGELITQKFHTSSRDQVLDGFLSACGRLSSFSDACSSIILTYFNE
IYEELSRNLNSDSICHISGVCASKYHNHASAEVEIEVKSNVGVLKNKELKDDIPCELCEQ
LVKHLSDILVANTTETEFKSVLQGLCSQTKGFKSECLELVNQYYAIIYESLVNNLDANGA
CFLIGVCRKGDNNHQVTPHMPLLPTNQKNIPKRNRLGENEKSYTNEQIKKMILPIDQLMG
AKSNLDLVDGGEKCTLCQYFLHFVQEELSDAKNEDEIKEIVGKTCDKFSSVIRSNCHQFV
NLYGDAIIALLVQSIDPRDVCPNLKLCPKFMNQDVDVFAPYPIVEVNESSKTQCPLCVLV
VKEAQDYIKSEKTTETVKKALERACSRLPAKLQLQCKDFVETYYDELLQK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
25 g602.t14 Gene3D G3DSA:1.10.225.10 Saposin 6 90 0.0000000
22 g602.t14 Gene3D G3DSA:1.10.225.10 Saposin 109 189 0.0000000
24 g602.t14 Gene3D G3DSA:1.10.225.10 Saposin 250 327 0.0000000
23 g602.t14 Gene3D G3DSA:1.10.225.10 Saposin 349 410 0.0000000
8 g602.t14 PANTHER PTHR11480 SAPOSIN-RELATED 2 197 0.0000000
10 g602.t14 PANTHER PTHR11480:SF84 BCDNA.GH08312 2 197 0.0000000
7 g602.t14 PANTHER PTHR11480 SAPOSIN-RELATED 230 409 0.0000000
9 g602.t14 PANTHER PTHR11480:SF84 BCDNA.GH08312 230 409 0.0000000
14 g602.t14 PRINTS PR01797 Saposin signature 71 89 0.0000000
13 g602.t14 PRINTS PR01797 Saposin signature 254 274 0.0000000
11 g602.t14 PRINTS PR01797 Saposin signature 303 321 0.0000000
12 g602.t14 PRINTS PR01797 Saposin signature 383 405 0.0000000
6 g602.t14 Pfam PF03489 Saposin-like type B, region 2 49 81 0.0001700
1 g602.t14 Pfam PF05184 Saposin-like type B, region 1 114 148 0.0000005
5 g602.t14 Pfam PF03489 Saposin-like type B, region 2 155 187 0.0000099
3 g602.t14 Pfam PF05184 Saposin-like type B, region 1 253 288 0.0000001
4 g602.t14 Pfam PF03489 Saposin-like type B, region 2 296 327 0.0000001
2 g602.t14 Pfam PF05184 Saposin-like type B, region 1 353 389 0.0000000
26 g602.t14 ProSiteProfiles PS50015 Saposin B type domain profile. 6 85 11.7330000
28 g602.t14 ProSiteProfiles PS50015 Saposin B type domain profile. 111 191 15.9290000
29 g602.t14 ProSiteProfiles PS50015 Saposin B type domain profile. 250 331 17.3180000
27 g602.t14 ProSiteProfiles PS50015 Saposin B type domain profile. 350 410 14.2440000
19 g602.t14 SMART SM00741 sapb_4 8 81 0.0000120
18 g602.t14 SMART SM00741 sapb_4 113 187 0.0000000
20 g602.t14 SMART SM00741 sapb_4 252 327 0.0000000
21 g602.t14 SMART SM00741 sapb_4 352 410 0.0006800
16 g602.t14 SUPERFAMILY SSF47862 Saposin 46 147 0.0000000
17 g602.t14 SUPERFAMILY SSF47862 Saposin 152 288 0.0000000
15 g602.t14 SUPERFAMILY SSF47862 Saposin 293 389 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