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 g14042 g14042.t6 TSS g14042.t6 34282435 34282435
chr_1 g14042 g14042.t6 isoform g14042.t6 34282794 34284042
chr_1 g14042 g14042.t6 exon g14042.t6.exon1 34282794 34284042
chr_1 g14042 g14042.t6 cds g14042.t6.CDS1 34283703 34284041
chr_1 g14042 g14042.t6 TTS g14042.t6 34284547 34284547

Sequences

>g14042.t6 Gene=g14042 Length=1249
CCTGTGAATGTGAATGTAAAGAGCAACTCAACTGTACAGCACCACAAATGTACCAATTTT
CTGTTTTACTTATTTTTTAAGTTTAATAAAAAAATTCTTTAATATTTAGCCTTGATCCTG
ATACATGTCAATGCAAATGCAAAAAGACACTAAAATGTGCAAAACCAATGAGCTTTAATT
CAACAATCTGTGATTGTCAATGTCCTAATATTGCATGTGATGGAAATCAAGTCGTTATGA
AACCAAATTGCACATGTCAATGCCCAACAGCTCCACGAAAATGCAATGATAATCAAGTTT
GGGATCCAATTGGTAATTTTTTTTATATCATTATGAAAATGTTCATAAAGTAAATATTCA
AATTAATTTTAAAAATAGCATGCAGTTGTGTTTGCAAAGATCAGCCTCAATGTGCTTTTA
ATCAAGTTTTTAATAATTCTACTTGCTCGTGTCAATGTTCAACACAACCATCATGTGCTT
CGTATCAAACGTTAAACACTAACACATGTGAATGTGACTGTACTACTGATAATAGCACAT
CATGCAATGCTCAACTCCCTTTATATGGTTGGAATAGTAGAAAATGCAATTGTGATTTCT
GTCCTGATAATCTAACTAGAAAAACACTTTGTGAATCTAATGCTAATTACAAATGGAATG
CCACAAACTGTTCATGTCAATTTTGTCACACTCGAAATGTTGATCAAGCTGCTTGCACTG
CTAAAGGTTCAACATTCGGATGGTCTGAATCACAGTGTAGCTGCATTTTCTGTCTTAATA
AAGATGTTCGTGCAAGTCAATGTGATTTATTGGGATCATTATATGGCTGGAATGATACAA
CCTGCAATTGTGATTTCTGCCCTAACTTAAATGATCGAGTAAACTCATGCAATGCTCTTG
GTGACAAATATGGCTTTAATTCGACTCAATGTCAATGTAATTTCTGTTATAAACGATCTG
ATAGAATCACTGCATGTAATGCACAAGGATCAACTTATGGATGGAATGACACAAACTGTA
GTTGTGATTTTTGTTACAATCAAGCTGACAGAATCAACTCTTGTAACTTACTTGGTTCCA
CTTATGGCTTTGATCCAATTCAATGCAGTTGTACTTTCTGTTATGGAAAAGCTGATCGTA
TTGCTGCATGCAATGCATCAGGCTCAGCTTATGCATGGAACGACACTAGTTGTCAATGTT
ATCTTATTCCTACAACCACTACCACTAGTACTACAACAACGACAACAAC

>g14042.t6 Gene=g14042 Length=113
MALIRLNVNVISVINDLIESLHVMHKDQLMDGMTQTVVVIFVTIKLTESTLVTYLVPLMA
LIQFNAVVLSVMEKLIVLLHAMHQAQLMHGTTLVVNVILFLQPLPLVLQQRQQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
3 g14042.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 50 -
7 g14042.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 51 72 -
5 g14042.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 73 86 -
6 g14042.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 87 108 -
4 g14042.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 109 113 -
2 g14042.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 50 72 -
1 g14042.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -

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. There were no conditions that were differentially expressed