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.t52 TSS g13169.t52 28316629 28316629
chr_1 g13169 g13169.t52 isoform g13169.t52 28316740 28317634
chr_1 g13169 g13169.t52 exon g13169.t52.exon1 28316740 28316764
chr_1 g13169 g13169.t52 exon g13169.t52.exon2 28316833 28316931
chr_1 g13169 g13169.t52 exon g13169.t52.exon3 28317035 28317310
chr_1 g13169 g13169.t52 cds g13169.t52.CDS1 28317095 28317310
chr_1 g13169 g13169.t52 exon g13169.t52.exon4 28317377 28317634
chr_1 g13169 g13169.t52 cds g13169.t52.CDS2 28317377 28317634
chr_1 g13169 g13169.t52 TTS g13169.t52 28317861 28317861

Sequences

>g13169.t52 Gene=g13169 Length=658
ATGTCTCTTACTTGGACTTTAATCGCTGGATTTTTGTATGCTGAAGTTGCTGTTGTTCTT
TTATTAGTATTGCCTGGTAAGGAAATTTTTGATATTACAAATATTGTGAAATTTTTTTGG
AAATATTTACTTTTATTTGATGCTTGGTGTTTTGGTAATCTTTTTGCTTGAGGCTATTAG
AGAAATGCGTAAATACAGCAGCAGTGAAGAGGAAACTACTCTTAATTTGGGAATGCAACA
TTCAATGAGACTCTTCCGTGCTCAACGCAACTTTTACATCTCTGGGTTTGCCATTTTCTT
GTCATTGGTCATTAGACGATTGATTATTTTAATCACAACACAAGCATCGTTAATTGCAAA
TTCTGAAGCAAGCATGAAACAAGCACAGTCCGCAACACAGGCTGCTCGTCATTTAATGGC
CGAAAAGAAAACTGATGGTGGTTCTGCTAACACTGCTAATAGTGATAATAAAGCTGATGA
TGATAAGGAAAAATTACAAAACAAGATTAAAGAATTGGAAGCTGAATTGAAAAAGGAACG
AAAGGATAAAGAAGCATTAAAATCGCAAGCTGATTCACTCAACAGAGAATATGATCGATT
GACAGAAGAGTACAGCAAATTGCAGAACAAGCAGGCTGCTGGTGACAAGTCAGACTAA

>g13169.t52 Gene=g13169 Length=157
MRKYSSSEEETTLNLGMQHSMRLFRAQRNFYISGFAIFLSLVIRRLIILITTQASLIANS
EASMKQAQSATQAARHLMAEKKTDGGSANTANSDNKADDDKEKLQNKIKELEAELKKERK
DKEALKSQADSLNREYDRLTEEYSKLQNKQAAGDKSD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g13169.t52 Coils Coil Coil 94 149 -
7 g13169.t52 Gene3D G3DSA:1.20.5.110 - 87 146 7.3E-6
6 g13169.t52 MobiDBLite mobidb-lite consensus disorder prediction 61 105 -
3 g13169.t52 PANTHER PTHR12701:SF50 LP10861P 1 151 1.8E-38
4 g13169.t52 PANTHER PTHR12701 BCR-ASSOCIATED PROTEIN, BAP 1 151 1.8E-38
2 g13169.t52 Pfam PF05529 Bap31/Bap29 transmembrane region 6 62 5.9E-17
1 g13169.t52 Pfam PF18035 Bap31/Bap29 cytoplasmic coiled-coil domain 106 157 4.8E-18
9 g13169.t52 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 29 -
11 g13169.t52 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 30 50 -
10 g13169.t52 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 51 157 -
5 g13169.t52 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 29 48 -

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.

Raw TPM values