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_1 g13169 g13169.t48 TSS g13169.t48 28316629 28316629
chr_1 g13169 g13169.t48 isoform g13169.t48 28316740 28317634
chr_1 g13169 g13169.t48 exon g13169.t48.exon1 28316740 28316764
chr_1 g13169 g13169.t48 exon g13169.t48.exon2 28316833 28316883
chr_1 g13169 g13169.t48 exon g13169.t48.exon3 28316964 28317056
chr_1 g13169 g13169.t48 cds g13169.t48.CDS1 28316980 28317056
chr_1 g13169 g13169.t48 exon g13169.t48.exon4 28317109 28317310
chr_1 g13169 g13169.t48 cds g13169.t48.CDS2 28317109 28317310
chr_1 g13169 g13169.t48 exon g13169.t48.exon5 28317377 28317634
chr_1 g13169 g13169.t48 cds g13169.t48.CDS3 28317377 28317634
chr_1 g13169 g13169.t48 TTS g13169.t48 28317861 28317861

Sequences

>g13169.t48 Gene=g13169 Length=629
ATGTCTCTTACTTGGACTTTAATCGCTGGATTTTTGTATGCTGAAGTTGCTGTTGTTCTT
TTATTAGTATTGCCTGTCTTTAGTGCATCCAAATGGAATCGTTTCTTCAAATCAAGATTT
CTGTCAGCTCTCTCTCGGCAAGCACAGATTTACTTTTATTTGATGCTTGCAGCAGTGAAG
AGGAAACTACTCTTAATTTGGGAATGCAACATTCAATGAGACTCTTCCGTGCTCAACGCA
ACTTTTACATCTCTGGGTTTGCCATTTTCTTGTCATTGGTCATTAGACGATTGATTATTT
TAATCACAACACAAGCATCGTTAATTGCAAATTCTGAAGCAAGCATGAAACAAGCACAGT
CCGCAACACAGGCTGCTCGTCATTTAATGGCCGAAAAGAAAACTGATGGTGGTTCTGCTA
ACACTGCTAATAGTGATAATAAAGCTGATGATGATAAGGAAAAATTACAAAACAAGATTA
AAGAATTGGAAGCTGAATTGAAAAAGGAACGAAAGGATAAAGAAGCATTAAAATCGCAAG
CTGATTCACTCAACAGAGAATATGATCGATTGACAGAAGAGTACAGCAAATTGCAGAACA
AGCAGGCTGCTGGTGACAAGTCAGACTAA

>g13169.t48 Gene=g13169 Length=178
MESFLQIKISVSSLSASTDLLLFDACSSEEETTLNLGMQHSMRLFRAQRNFYISGFAIFL
SLVIRRLIILITTQASLIANSEASMKQAQSATQAARHLMAEKKTDGGSANTANSDNKADD
DKEKLQNKIKELEAELKKERKDKEALKSQADSLNREYDRLTEEYSKLQNKQAAGDKSD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g13169.t48 Coils Coil Coil 115 170 -
7 g13169.t48 Gene3D G3DSA:1.20.5.110 - 108 167 9.4E-6
6 g13169.t48 MobiDBLite mobidb-lite consensus disorder prediction 88 126 -
3 g13169.t48 PANTHER PTHR12701:SF50 LP10861P 27 172 6.4E-38
4 g13169.t48 PANTHER PTHR12701 BCR-ASSOCIATED PROTEIN, BAP 27 172 6.4E-38
2 g13169.t48 Pfam PF05529 Bap31/Bap29 transmembrane region 27 83 7.8E-17
1 g13169.t48 Pfam PF18035 Bap31/Bap29 cytoplasmic coiled-coil domain 127 178 6.1E-18
9 g13169.t48 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 50 -
11 g13169.t48 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 51 71 -
10 g13169.t48 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 72 178 -
5 g13169.t48 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 50 69 -

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:0006886 intracellular protein transport BP
GO:0005783 endoplasmic reticulum CC
GO:0016021 integral component of membrane CC

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