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 g11978 g11978.t10 TSS g11978.t10 20131511 20131511
chr_1 g11978 g11978.t10 isoform g11978.t10 20131584 20132276
chr_1 g11978 g11978.t10 exon g11978.t10.exon1 20131584 20131846
chr_1 g11978 g11978.t10 cds g11978.t10.CDS1 20131584 20131846
chr_1 g11978 g11978.t10 exon g11978.t10.exon2 20131903 20131999
chr_1 g11978 g11978.t10 cds g11978.t10.CDS2 20131903 20131999
chr_1 g11978 g11978.t10 exon g11978.t10.exon3 20132053 20132276
chr_1 g11978 g11978.t10 TTS g11978.t10 20132272 20132272

Sequences

>g11978.t10 Gene=g11978 Length=584
ATGAGTGTTTTTGATACATTAAATTACAATAACTATGCATTTCGCGTTTATATTACTTGG
GGAGGATTACTCCTTATTAAATTGCTATTTATGGCATTTTTGACATCATTTCAACGAATT
CGTAAAGGAGCTGTCGAAAATCCAGAAGATGTTGGTGTTCGCTCAAATATGGAGATCAAG
AAAGATGAAGATGTAGAGCGAGTGAGACGTGCTCATTTGAATGACCTTGAAAATATTCCA
GCATTTTTGTTTGCCGCATTGATGTATATTATGGCTGATCCTCATCCTATTGCCGCAGCA
TGGTTAATTCGTATTGCTGTTCTTGCAAGAATTGGTCATACAATTGTGTACGCTATGTAA
TTACCCTATTCGTCAACCTGCAAGAGGAATTTGCTTCTTCATAACTCTTGGCATCACTGT
CTTTATGATTATATGGTCAATGGTTATATTTTTCGAGATCTAAATAAGATAGTTTTCATA
ATATGTCCTTGAGATTAATTTCTATATGATAAATGTGCTTATAGATTAGTATTAAATGTG
TGTGAAAATCAAAAATAATAAATGTGAATTAATAATCTACAAAA

>g11978.t10 Gene=g11978 Length=119
MSVFDTLNYNNYAFRVYITWGGLLLIKLLFMAFLTSFQRIRKGAVENPEDVGVRSNMEIK
KDEDVERVRRAHLNDLENIPAFLFAALMYIMADPHPIAAAWLIRIAVLARIGHTIVYAM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g11978.t10 Gene3D G3DSA:1.20.120.550 - 3 119 1.7E-42
2 g11978.t10 PANTHER PTHR10689 MICROSOMAL GLUTATHIONE S-TRANSFERASE 1 6 119 9.3E-34
3 g11978.t10 PANTHER PTHR10689:SF6 IP20101P-RELATED 6 119 9.3E-34
1 g11978.t10 Pfam PF01124 MAPEG family 18 118 1.7E-19
10 g11978.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
13 g11978.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
8 g11978.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 35 75 -
14 g11978.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 76 92 -
11 g11978.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 93 97 -
12 g11978.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 98 118 -
9 g11978.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 119 119 -
6 g11978.t10 SUPERFAMILY SSF161084 MAPEG domain-like 13 118 7.46E-29
5 g11978.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
4 g11978.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 81 103 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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