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_2 g5728 g5728.t1 isoform g5728.t1 11435976 11437550
chr_2 g5728 g5728.t1 exon g5728.t1.exon1 11435976 11437550
chr_2 g5728 g5728.t1 cds g5728.t1.CDS1 11435976 11437550
chr_2 g5728 g5728.t1 TSS g5728.t1 11437905 11437905
chr_2 g5728 g5728.t1 TTS g5728.t1 NA NA

Sequences

>g5728.t1 Gene=g5728 Length=1575
ATGAACTCGCAGCAAACGAAGCCACAAGAGATGGTGAAAATGAGCAATGGTCAATTTTAT
GATGGCACCGTTCGAACAGTAAAACAGCGTGCACATAAATTTAATGCAATAGCAATTAGC
AATATAAATGCTGCCAACAATAACTCGAATATTCCAATGCCGAGTAAAACTATAGGAGGA
AGCAATAATGCAAGCAGCATGACCAAAGTGAACAATAAAAATAGTGAAAATGCAAGAAAG
AATGTACTAGTAAACGGCAATGGTCATCATCGTACATCATCATCAACGACAAATATAGCT
AATACAGATAGCAATAATAATCATAACATTAAAATTAATATTGTTAATAAATATACCACA
AATAAAAATACAACACATGTCGCCACCAAAAACATTAATACCGAGCAAGAAAAAAATAAT
GGCAATCAAATTGATGATGTGACATCAACAATAATAACAAAAAGTGATAATTCATCTAAT
GTCATTGGAACTAATAACACGAGTAAAATATTGCTTAATACGAATGATGTTAAAATTAAA
ATTAATCAATTGAATCAATCGAATGTCGCATCAGTGTCACCAACGAAACCAAAAGCACCT
GCTCCTCCAATTCCGATACAACAGCAACAACAATCATCTACAGCATCAACATGGAATTCA
AGTGGATGGATAAGAGTTTATTGTGGACCAGATAGATCTGAAATATCGATAGAAGATCCT
AATCGTATGGTGATGGTTTATTCAAATTCAACAACTAGCGAAGTAGTCAAAGATATGGGA
TTGCCATCCGATTATACTCTTTGGTGTCAAATTGGTCAAAAATCACGTCGATTAGAAGAC
TATGAACAGCCATTTAAAGTACAGGAAGAATTTCTTATGAAACTTGGTTATCATGATGAA
TCAAGAAGATCTCGATTGGGAATTGATTTAGATCTTAAATATCTCATTCGATTTCACATT
GGACCAATTGACATTCCTCTTTGTAAAGGCGCTACAAAGTGTGGAAATATTGAATTACTC
AAAGGTCTTGTGTTTCCTCAATGGAAAAGAAGAACAATAGCAATTATTGGAACAAAATTA
ATTGTTTATCCCGCAAATCAATCTCTAATGCCCGAAACTTATGAGCTCAGTGGCAGCGAG
ATCTTCGAGCATGGTTCAGTTTATAATCGTCTAATAATAAAAATTGTGCCAAAAATTAGT
GATAGTCTTAATAATACAATGGAAAATTTGACGAGAAACAACAAAAGTACTGAATGTTTA
AATATCAACAGTAGCAGTAGTGCAAGTAGTCCTAATAGTAGCAACTTGAGCAGTTTAGGT
GGCGTCCATCATAACAGTAATTTGAGCGTGAGCTCACAGAGTTCAGAAGTTGTGCTCTTT
CTCGGATTCGAAGAATCATGGGAGCGCGATTTATGGTCCAATTGGCTGATGGAAGTAAGT
ATCTTAAAAGACGAAAACTTTCCCTTCGTTTATATGCTCATCTTGAGCAATGTCTCGCGT
TTTTTCTGCAGCAATGCATCCGGCTGCAACGACACAAAAAACTGCATCGAAATTTTGCAA
TTTTCAATTGTTTGA

>g5728.t1 Gene=g5728 Length=524
MNSQQTKPQEMVKMSNGQFYDGTVRTVKQRAHKFNAIAISNINAANNNSNIPMPSKTIGG
SNNASSMTKVNNKNSENARKNVLVNGNGHHRTSSSTTNIANTDSNNNHNIKINIVNKYTT
NKNTTHVATKNINTEQEKNNGNQIDDVTSTIITKSDNSSNVIGTNNTSKILLNTNDVKIK
INQLNQSNVASVSPTKPKAPAPPIPIQQQQQSSTASTWNSSGWIRVYCGPDRSEISIEDP
NRMVMVYSNSTTSEVVKDMGLPSDYTLWCQIGQKSRRLEDYEQPFKVQEEFLMKLGYHDE
SRRSRLGIDLDLKYLIRFHIGPIDIPLCKGATKCGNIELLKGLVFPQWKRRTIAIIGTKL
IVYPANQSLMPETYELSGSEIFEHGSVYNRLIIKIVPKISDSLNNTMENLTRNNKSTECL
NINSSSSASSPNSSNLSSLGGVHHNSNLSVSSQSSEVVLFLGFEESWERDLWSNWLMEVS
ILKDENFPFVYMLILSNVSRFFCSNASGCNDTKNCIEILQFSIV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g5728.t1 CDD cd17213 RA_PHLPP 222 322 5.28919E-32
1 g5728.t1 Coils Coil Coil 400 420 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5728/g5728.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5728.t1.fa.iupred3.txt does not exist

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