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 g10852 g10852.t2 isoform g10852.t2 12279920 12285923
chr_1 g10852 g10852.t2 TSS g10852.t2 12279920 12279920
chr_1 g10852 g10852.t2 exon g10852.t2.exon1 12279920 12280576
chr_1 g10852 g10852.t2 cds g10852.t2.CDS1 12280490 12280576
chr_1 g10852 g10852.t2 exon g10852.t2.exon2 12284964 12285107
chr_1 g10852 g10852.t2 cds g10852.t2.CDS2 12284964 12285107
chr_1 g10852 g10852.t2 exon g10852.t2.exon3 12285530 12285665
chr_1 g10852 g10852.t2 cds g10852.t2.CDS3 12285530 12285665
chr_1 g10852 g10852.t2 exon g10852.t2.exon4 12285730 12285923
chr_1 g10852 g10852.t2 cds g10852.t2.CDS4 12285730 12285923
chr_1 g10852 g10852.t2 TTS g10852.t2 NA NA

Sequences

>g10852.t2 Gene=g10852 Length=1131
ATTGTGCTTCTCATTTTCATCTCGTATGGATGCGAAAAATTTTCTCTCTCTCGCTTTTTA
AAGAAAATTTATTTTATTATTGTTACTTTTGAGATTTTTACTTTATCCTTATTGTGTGCA
AAAGTTTTTAAAAATAATAGTGAACTTGTGGTATTAATTGTAAACTACAAGAAGGATTAT
TGAAAAGAAGGTTTTAATAAAAAAATTAGTTGCAGAATTTCCATCAGAAGAAAAATCGAT
TTTGTGACCAAAAAAGTTCTCTCATATTTTGTGGCACAATTCATTTTTCTGTTTACAAAA
AATTAAAAAGAAAAATTAATTTCTCTTTCTGACTGACCTTCCGATTGTGGCTTTTTATAT
AACCGAAAAATCACTTCACATTAAAACTATTAGGGAGAAATGTTTATATCACGAAAGTAA
AATGAACATTTAAGAGGAAAAATTGTACAATAATCGTGAAATATTATTTGTGTGTTGTTA
GTCATAAATGAGTAAGCGAATAATTGCATAATGTGAGAACCGTGTATGTGAATATTTGAT
TTATTGATGACCATATAGACTAATTAATGAATGCTGATAAATTGCATAATTCAAGTAATT
AAAAAAGTTTTTTGGAAGAAACCAACACAAATGATTAAAACTTTGATTCTAAAAAAGATG
CATTCGCGTTTTTTGGTGCTTGTTTGCCGGAAAAAGTTGTTATTGGTTGCAGTAGCCTTC
CTTGTGTCGATTATATGGGGATTTATTTATTCATCGACTACTAGCGGGCATGATGATACA
AACAAAGGTGTTTCAGTGAAGGATAGAAAACTAGAAAATAAGTATGAGTTATTGCAAAAA
CTTGCTGTAAACCAAAAAGATGTAAATGAACCGCTTCGATATTTATTCAAACCAACTGCC
ATAAATCTTCAAACTCTTCATGATCTAAACCGAAGAGAAAAATATTTCAAAGATTGGAAT
AAAATCCTCCTTGACAAGGAAGAAAAAGAAAGAATTGAAAATTTTGCAATTATTTCACGC
GATGAGATATCACGTAGAAAGATAGCGGATGAAATGAAAGTGGCAGCCGACAGACAAGCA
AAGTATGAAGGTCAATTGAAGAAAATGGGAATACCTGTAATTGTTGGATTG

>g10852.t2 Gene=g10852 Length=187
MLINCIIQVIKKVFWKKPTQMIKTLILKKMHSRFLVLVCRKKLLLVAVAFLVSIIWGFIY
SSTTSGHDDTNKGVSVKDRKLENKYELLQKLAVNQKDVNEPLRYLFKPTAINLQTLHDLN
RREKYFKDWNKILLDKEEKERIENFAIISRDEISRRKIADEMKVAADRQAKYEGQLKKMG
IPVIVGL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g10852.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 42 -
4 g10852.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 43 61 -
3 g10852.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 62 187 -
1 g10852.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 43 60 -

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