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 g2782 g2782.t8 isoform g2782.t8 20264452 20266523
chr_3 g2782 g2782.t8 exon g2782.t8.exon1 20264452 20265410
chr_3 g2782 g2782.t8 cds g2782.t8.CDS1 20264498 20265410
chr_3 g2782 g2782.t8 exon g2782.t8.exon2 20265464 20265576
chr_3 g2782 g2782.t8 cds g2782.t8.CDS2 20265464 20265576
chr_3 g2782 g2782.t8 exon g2782.t8.exon3 20265636 20266218
chr_3 g2782 g2782.t8 cds g2782.t8.CDS3 20265636 20266218
chr_3 g2782 g2782.t8 exon g2782.t8.exon4 20266291 20266523
chr_3 g2782 g2782.t8 cds g2782.t8.CDS4 20266291 20266523
chr_3 g2782 g2782.t8 TTS g2782.t8 20266737 20266737
chr_3 g2782 g2782.t8 TSS g2782.t8 NA NA

Sequences

>g2782.t8 Gene=g2782 Length=1888
AGCATTTGACAATCCAAATATTCCATGTGAATTATGTGAACAGCTCATGCTCCATCTTCG
AGAAGTTTTAATAGCAAACACTACAGAAATTGAGTTTAAGAATATCCTTGAAGGTTTCTG
CAATCAAATGCCTTCCATTGCACAAGAATGTGTTTCACTTGCTGATCAATATTATGACTC
AATTTATCAATATCTTGTGAATGGACTTGATGCAAATAAAACCTGTGTCATGATCGGAAT
ATGCTCACATAAATTAGATTCGTATAATGCACCAGCAATGCCACTTTTATCAAGTGAATT
CTTCCCAGTACCAGAAGTAGATTCAATCGAAGTTCATATTGTAACACAGGATTCATCAAT
AAATCTTCATAAGGATGGAAGATTGTGTACTGCATGCGAATATACAATGAATTTAGTTCA
CATCGAAATGAATAAGAATGGAGTACAAGAAAACATTTTAAAGAAAGTCAGAGCAGAATG
TAAAAAGTTACCAGCTTATGTACGTCAATGTGAAGATCTTATTGATACGTTTGGTGATCA
AATTATGAATGCAATTTATCAAGGCACAAATCCACGTTTAGTTTGTCCACTCATAAAAAT
GTGTCCTCCCAATTTAAACTTTCAATACCTCCAAGAAACTGCTGTAGATGAAAAACCAAC
ATGTCCATTCTGTCTTTTCGCTATGCAAGAGGTTCGAGATTTGGTATCGTCAAATGCATC
CAAAACAAATGTTGAAAAAGTTTTAGATCAACTATGCACGCATCTATCAGACAAATTAAA
ATCACAATGTATTGAGTTTGTTAATGAATATTCATCAGAAGTGGTAGACATGATTTTAGC
AAACTTCACACCACAAGAGGCATGTGTCTTTATAAAATTGTGTAGTCAAGAGAAACCGAA
ATTAAAACGTTTTAGTATGGCTGGAATTTTTAATGAAAATCATAGCGATGAAATGATAGA
TTTTGATGATGATGATAATAACAATTCAAAGTTACTTGATAATCCTCAATGTGATTTGTG
TAAAGCTGTTATAAAATTGATTGAACAAAGAGTCATTGATATTAAATCAAAGGATGAAAT
TCGTCGTGAACTTGAAAATTCTTGTAGTCATTTAAAACGGTTTTCAAAAGAGTGCAAAGC
ATTTGTCGACAAATATTCTGATCGAATTGTTGATTTAGTTAGCAAGGAATTAGCACCCGA
AAATGTATGCAAAGAACTGATATTTTGTGTAACTGAAGAGAAGGTTGACATGCAAGATTA
TGATGTCGGTCTTGATATTTTCGCAAAAAGTTTCAGTGAATCAGCAGAAGTCAGTGAAGA
CCTTGAAGTTACAGGAACGAGTTGTATCATTTGTGAATTTATTATGACTAAAATCGATGA
AGAATTAAATGATAAGCAAAAGGATGAAGATATTAAACACATCATTAAAAACGTTTGCTC
AAAAATGCCATCAACTGTTTCGAAGCAATGTAATCAATTTATCGACTATTACTTTGACAT
GATCATTGTACTCATCGAGACAACGAAACCATCAGAAATGTGTAAAGAGTTGAAGCTTTG
TCCAAAATCAAATGAAGAACTTGAAAATCAACTTGTGGAAATAAAAGGTGACATTTATAC
CTGTGCAGTTTGCAGAGGTGCTGTTGAGAGTTTAGATTCTATAATTGAAGATCCACAAGT
TGATGTAAAATTGGAAAATCTTGAAGAAAAAATTTGTGAAAAATTTGCAGGAAAATTTAA
AGAGAAGTGTCACAATTTAACAAATACTTATGGCACACTTATCATCAATTTATTGAAAAA
CATTGCTGAATCTGATCAAATTTGTTACAAACTTAATTTATGTGCATCAGACGAGAAAAA
CAACACAGGAATGGCTCGTTTTTACTAA

>g2782.t8 Gene=g2782 Length=613
MLHLREVLIANTTEIEFKNILEGFCNQMPSIAQECVSLADQYYDSIYQYLVNGLDANKTC
VMIGICSHKLDSYNAPAMPLLSSEFFPVPEVDSIEVHIVTQDSSINLHKDGRLCTACEYT
MNLVHIEMNKNGVQENILKKVRAECKKLPAYVRQCEDLIDTFGDQIMNAIYQGTNPRLVC
PLIKMCPPNLNFQYLQETAVDEKPTCPFCLFAMQEVRDLVSSNASKTNVEKVLDQLCTHL
SDKLKSQCIEFVNEYSSEVVDMILANFTPQEACVFIKLCSQEKPKLKRFSMAGIFNENHS
DEMIDFDDDDNNNSKLLDNPQCDLCKAVIKLIEQRVIDIKSKDEIRRELENSCSHLKRFS
KECKAFVDKYSDRIVDLVSKELAPENVCKELIFCVTEEKVDMQDYDVGLDIFAKSFSESA
EVSEDLEVTGTSCIICEFIMTKIDEELNDKQKDEDIKHIIKNVCSKMPSTVSKQCNQFID
YYFDMIIVLIETTKPSEMCKELKLCPKSNEELENQLVEIKGDIYTCAVCRGAVESLDSII
EDPQVDVKLENLEEKICEKFAGKFKEKCHNLTNTYGTLIINLLKNIAESDQICYKLNLCA
SDEKNNTGMARFY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
40 g2782.t8 Gene3D G3DSA:1.10.225.10 Saposin 1 68 0.0000000
36 g2782.t8 Gene3D G3DSA:1.10.225.10 Saposin 110 192 0.0000000
37 g2782.t8 Gene3D G3DSA:1.10.225.10 Saposin 200 281 0.0000000
39 g2782.t8 Gene3D G3DSA:1.10.225.10 Saposin 318 396 0.0000000
35 g2782.t8 Gene3D G3DSA:1.10.225.10 Saposin 429 508 0.0000000
38 g2782.t8 Gene3D G3DSA:1.10.225.10 Saposin 522 601 0.0000000
10 g2782.t8 PANTHER PTHR11480 SAPOSIN-RELATED 3 191 0.0000000
14 g2782.t8 PANTHER PTHR11480:SF84 BCDNA.GH08312 3 191 0.0000000
12 g2782.t8 PANTHER PTHR11480 SAPOSIN-RELATED 99 286 0.0000000
16 g2782.t8 PANTHER PTHR11480:SF84 BCDNA.GH08312 99 286 0.0000000
11 g2782.t8 PANTHER PTHR11480 SAPOSIN-RELATED 312 519 0.0000000
15 g2782.t8 PANTHER PTHR11480:SF84 BCDNA.GH08312 312 519 0.0000000
9 g2782.t8 PANTHER PTHR11480 SAPOSIN-RELATED 524 603 0.0000000
13 g2782.t8 PANTHER PTHR11480:SF84 BCDNA.GH08312 524 603 0.0000000
23 g2782.t8 PRINTS PR01797 Saposin signature 220 237 0.0000000
20 g2782.t8 PRINTS PR01797 Saposin signature 269 287 0.0000000
18 g2782.t8 PRINTS PR01797 Saposin signature 433 453 0.0000000
19 g2782.t8 PRINTS PR01797 Saposin signature 481 499 0.0000000
22 g2782.t8 PRINTS PR01797 Saposin signature 523 545 0.0000000
17 g2782.t8 PRINTS PR01797 Saposin signature 555 577 0.0000000
21 g2782.t8 PRINTS PR01797 Saposin signature 577 600 0.0000000
4 g2782.t8 Pfam PF03489 Saposin-like type B, region 2 33 66 0.0000000
3 g2782.t8 Pfam PF03489 Saposin-like type B, region 2 154 186 0.0000017
1 g2782.t8 Pfam PF05184 Saposin-like type B, region 1 204 240 0.0000000
6 g2782.t8 Pfam PF03489 Saposin-like type B, region 2 247 279 0.0000000
5 g2782.t8 Pfam PF03489 Saposin-like type B, region 2 361 391 0.0000000
2 g2782.t8 Pfam PF05184 Saposin-like type B, region 1 433 468 0.0000004
8 g2782.t8 Pfam PF03489 Saposin-like type B, region 2 473 505 0.0000031
7 g2782.t8 Pfam PF03489 Saposin-like type B, region 2 567 599 0.0000590
44 g2782.t8 ProSiteProfiles PS50015 Saposin B type domain profile. 1 70 12.2480000
46 g2782.t8 ProSiteProfiles PS50015 Saposin B type domain profile. 110 190 16.8650000
43 g2782.t8 ProSiteProfiles PS50015 Saposin B type domain profile. 202 283 17.7860000
42 g2782.t8 ProSiteProfiles PS50015 Saposin B type domain profile. 318 398 17.9730000
45 g2782.t8 ProSiteProfiles PS50015 Saposin B type domain profile. 429 509 17.2080000
41 g2782.t8 ProSiteProfiles PS50015 Saposin B type domain profile. 522 603 15.5860000
32 g2782.t8 SMART SM00741 sapb_4 1 66 0.0000001
34 g2782.t8 SMART SM00741 sapb_4 112 186 0.0000000
29 g2782.t8 SMART SM00741 sapb_4 204 279 0.0000000
33 g2782.t8 SMART SM00741 sapb_4 320 394 0.0000000
30 g2782.t8 SMART SM00741 sapb_4 431 505 0.0000000
31 g2782.t8 SMART SM00741 sapb_4 524 599 0.0000000
25 g2782.t8 SUPERFAMILY SSF47862 Saposin 31 149 0.0000000
26 g2782.t8 SUPERFAMILY SSF47862 Saposin 151 240 0.0000000
27 g2782.t8 SUPERFAMILY SSF47862 Saposin 244 356 0.0000000
24 g2782.t8 SUPERFAMILY SSF47862 Saposin 430 507 0.0000000
28 g2782.t8 SUPERFAMILY SSF47862 Saposin 524 601 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