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 g2782 g2782.t10 isoform g2782.t10 20265649 20266523
chr_3 g2782 g2782.t10 exon g2782.t10.exon1 20265649 20266218
chr_3 g2782 g2782.t10 cds g2782.t10.CDS1 20265813 20266218
chr_3 g2782 g2782.t10 exon g2782.t10.exon2 20266291 20266523
chr_3 g2782 g2782.t10 cds g2782.t10.CDS2 20266291 20266523
chr_3 g2782 g2782.t10 TTS g2782.t10 20266737 20266737
chr_3 g2782 g2782.t10 TSS g2782.t10 NA NA

Sequences

>g2782.t10 Gene=g2782 Length=803
GTGAACTTGAAAATTCTTGTAGTCATTTAAAACGGTTTTCAAAAGAGTGCAAAGCATTTG
TCGACAAATATTCTGATCGAATTGTTGATTTAGTTAGCAAGGAATTAGCACCCGAAAATG
TATGCAAAGAACTGATATTTTGTGTAACTGAAGAGAAGGTTGACATGCAAGATTATGATG
TCGGTCTTGATATTTTCGCAAAAAGTTTCAGTGAATCAGCAGAAGTCAGTGAAGACCTTG
AAGTTACAGGAACGAGTTGTATCATTTGTGAATTTATTATGACTAAAATCGATGAAGAAT
TAAATGATAAGCAAAAGGATGAAGATATTAAACACATCATTAAAAACGTTTGCTCAAAAA
TGCCATCAACTGTTTCGAAGCAATGTAATCAATTTATCGACTATTACTTTGACATGATCA
TTGTACTCATCGAGACAACGAAACCATCAGAAATGTGTAAAGAGTTGAAGCTTTGTCCAA
AATCAAATGAAGAACTTGAAAATCAACTTGTGGAAATAAAAGGTGACATTTATACCTGTG
CAGTTTGCAGAGGTGCTGTTGAGAGTTTAGATTCTATAATTGAAGATCCACAAGTTGATG
TAAAATTGGAAAATCTTGAAGAAAAAATTTGTGAAAAATTTGCAGGAAAATTTAAAGAGA
AGTGTCACAATTTAACAAATACTTATGGCACACTTATCATCAATTTATTGAAAAACATTG
CTGAATCTGATCAAATTTGTTACAAACTTAATTTATGTGCATCAGACGAGAAAAACAACA
CAGGAATGGCTCGTTTTTACTAA

>g2782.t10 Gene=g2782 Length=212
MQDYDVGLDIFAKSFSESAEVSEDLEVTGTSCIICEFIMTKIDEELNDKQKDEDIKHIIK
NVCSKMPSTVSKQCNQFIDYYFDMIIVLIETTKPSEMCKELKLCPKSNEELENQLVEIKG
DIYTCAVCRGAVESLDSIIEDPQVDVKLENLEEKICEKFAGKFKEKCHNLTNTYGTLIIN
LLKNIAESDQICYKLNLCASDEKNNTGMARFY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g2782.t10 Gene3D G3DSA:1.10.225.10 Saposin 28 107 0.0000000
18 g2782.t10 Gene3D G3DSA:1.10.225.10 Saposin 121 200 0.0000000
5 g2782.t10 PANTHER PTHR11480 SAPOSIN-RELATED 30 118 0.0000000
7 g2782.t10 PANTHER PTHR11480:SF84 BCDNA.GH08312 30 118 0.0000000
4 g2782.t10 PANTHER PTHR11480 SAPOSIN-RELATED 109 202 0.0000000
6 g2782.t10 PANTHER PTHR11480:SF84 BCDNA.GH08312 109 202 0.0000000
8 g2782.t10 PRINTS PR01797 Saposin signature 32 52 0.0000000
10 g2782.t10 PRINTS PR01797 Saposin signature 80 98 0.0000000
9 g2782.t10 PRINTS PR01797 Saposin signature 122 144 0.0000000
12 g2782.t10 PRINTS PR01797 Saposin signature 154 176 0.0000000
11 g2782.t10 PRINTS PR01797 Saposin signature 176 199 0.0000000
1 g2782.t10 Pfam PF05184 Saposin-like type B, region 1 32 67 0.0000001
2 g2782.t10 Pfam PF03489 Saposin-like type B, region 2 72 104 0.0000008
3 g2782.t10 Pfam PF03489 Saposin-like type B, region 2 166 198 0.0000140
20 g2782.t10 ProSiteProfiles PS50015 Saposin B type domain profile. 28 108 17.2080000
19 g2782.t10 ProSiteProfiles PS50015 Saposin B type domain profile. 121 202 15.5860000
16 g2782.t10 SMART SM00741 sapb_4 30 104 0.0000000
15 g2782.t10 SMART SM00741 sapb_4 123 198 0.0000000
14 g2782.t10 SUPERFAMILY SSF47862 Saposin 29 106 0.0000000
13 g2782.t10 SUPERFAMILY SSF47862 Saposin 123 200 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