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.t57 TSS g13169.t57 28316629 28316629
chr_1 g13169 g13169.t57 isoform g13169.t57 28316740 28317858
chr_1 g13169 g13169.t57 exon g13169.t57.exon1 28316740 28316768
chr_1 g13169 g13169.t57 exon g13169.t57.exon2 28316936 28317310
chr_1 g13169 g13169.t57 cds g13169.t57.CDS1 28317095 28317310
chr_1 g13169 g13169.t57 exon g13169.t57.exon3 28317377 28317457
chr_1 g13169 g13169.t57 cds g13169.t57.CDS2 28317377 28317457
chr_1 g13169 g13169.t57 exon g13169.t57.exon4 28317512 28317858
chr_1 g13169 g13169.t57 cds g13169.t57.CDS3 28317512 28317634
chr_1 g13169 g13169.t57 TTS g13169.t57 28317861 28317861

Sequences

>g13169.t57 Gene=g13169 Length=832
ATGTCTCTTACTTGGACTTTAATCGGTGCCAATTCTATTTTTAAACTGCTTATTTAGTCT
TTAGTGCATCCAAATGGAATCGTTTCTTCAAATCAAGATTTCTGTCAGCTCTCTCTCGGC
AAGCACAGATTTACTTTTATTTGATGCTTGGTGTTTTGGTAATCTTTTTGCTTGAGGCTA
TTAGAGAAATGCGTAAATACAGCAGCAGTGAAGAGGAAACTACTCTTAATTTGGGAATGC
AACATTCAATGAGACTCTTCCGTGCTCAACGCAACTTTTACATCTCTGGGTTTGCCATTT
TCTTGTCATTGGTCATTAGACGATTGATTATTTTAATCACAACACAAGCATCGTTAATTG
CAAATTCTGAAGCAAGCATGAAACAAGCACAGTCCGCAACACAGGCTGCTCGTCATTTAA
TGGCCGAAAAGAAAACTGATGGTGGTTCTGCTAACACTGCTAATAGTGATAATAAAGCTG
ATGATGAACGAAAGGATAAAGAAGCATTAAAATCGCAAGCTGATTCACTCAACAGAGAAT
ATGATCGATTGACAGAAGAGTACAGCAAATTGCAGAACAAGCAGGCTGCTGGTGACAAGT
CAGACTAAGCTATTCGAATATTTGTGCATCACGTACTTGTCATTTTTTCTCATGAAATTT
TAATACACTGTATGAGGTTCTAATTCTTCTTCTTCTTACCTTTAACCGATGATTCACTTT
AAAAACAAAATATGAAATAAATATTATTAGCTTTGATAATTTATATTTTCCTAATGTATG
TTTCTTACAAAAGAGAGAAAAAAGAGAATTAAACAATAAAACTTGATAAAAA

>g13169.t57 Gene=g13169 Length=139
MRKYSSSEEETTLNLGMQHSMRLFRAQRNFYISGFAIFLSLVIRRLIILITTQASLIANS
EASMKQAQSATQAARHLMAEKKTDGGSANTANSDNKADDERKDKEALKSQADSLNREYDR
LTEEYSKLQNKQAAGDKSD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g13169.t57 Coils Coil Coil 97 131 -
7 g13169.t57 MobiDBLite mobidb-lite consensus disorder prediction 61 139 -
6 g13169.t57 MobiDBLite mobidb-lite consensus disorder prediction 94 126 -
3 g13169.t57 PANTHER PTHR12701:SF50 LP10861P 1 133 3.6E-35
4 g13169.t57 PANTHER PTHR12701 BCR-ASSOCIATED PROTEIN, BAP 1 133 3.6E-35
2 g13169.t57 Pfam PF05529 Bap31/Bap29 transmembrane region 6 62 4.5E-17
1 g13169.t57 Pfam PF18035 Bap31/Bap29 cytoplasmic coiled-coil domain 100 139 1.7E-13
9 g13169.t57 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 29 -
11 g13169.t57 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 30 50 -
10 g13169.t57 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 51 139 -
5 g13169.t57 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