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 g10043 g10043.t2 isoform g10043.t2 7006721 7015759
chr_1 g10043 g10043.t2 TSS g10043.t2 7006721 7006721
chr_1 g10043 g10043.t2 exon g10043.t2.exon1 7006721 7006970
chr_1 g10043 g10043.t2 exon g10043.t2.exon2 7014465 7014716
chr_1 g10043 g10043.t2 exon g10043.t2.exon3 7014786 7015012
chr_1 g10043 g10043.t2 cds g10043.t2.CDS1 7014806 7015012
chr_1 g10043 g10043.t2 exon g10043.t2.exon4 7015090 7015178
chr_1 g10043 g10043.t2 cds g10043.t2.CDS2 7015090 7015178
chr_1 g10043 g10043.t2 exon g10043.t2.exon5 7015280 7015470
chr_1 g10043 g10043.t2 cds g10043.t2.CDS3 7015280 7015470
chr_1 g10043 g10043.t2 exon g10043.t2.exon6 7015551 7015759
chr_1 g10043 g10043.t2 cds g10043.t2.CDS4 7015551 7015759
chr_1 g10043 g10043.t2 TTS g10043.t2 7016079 7016079

Sequences

>g10043.t2 Gene=g10043 Length=1218
CAGTTTGCTTTTGAGACTCGACTAAACAACATCGAGTACGCGCGTGTTCGTTGAGTTATT
TTTTTATTTTTCTTAACTTGCTAATTAGTACGTGTGTGTTAAAAATTATTAAAGCTCAAG
GAGCATAGAGAAACTCGTAAAAATAAGATTACCAATTAAAAAACATACGAAATAAGTCAA
GGAAAGCGCAAAATCGAAAGAAAGAAGTGCAAAATTGTTGAAAATAAATTTCCGTAGTTT
TTGAAAAATGATGTAAAGCGATTTCGATGATGGAAGTTCATACTGCTTTAGTGCTTACCG
TGCAACTTATTGCTCTATTCTCGATCGCAGGCGCTCTGTTACTCTACTTGCTATGCAAAG
TTAAGGGTTCACGAAATGTGACTCTAGATCCACGTTGTGGTTCCATTCTAATTACATCTG
CAGATACGGCACTCGGCCTTCAACTGTCGACCTATCTCGCATCAAAAGGATGTCGTGTCT
TTGCTGGCATGAAGGTTTGATTCAAAATTGCTGAAAGGCTGGATGAAAGCTCGCGAGAAT
GCTTTAGATTTGGAAAGTGAGTGTGTCATTGGAACAATAGTGCCACTAAAAGTTGATGTT
ACAAAGGAAGATGTTATAAGAGAAGCTGCTGAGAAAATGGGCGCTCATCTTAATGCAAGC
GAGCGAGGAATACTTGCAGTAGTCAACACTGCTGGAAGTATTTTCCGTGGTCGCATGGAC
TCACAGGAGCTACACGAATGGGAATGCATGTTCAAACACAACGTTTTGGGTTGTCTAAGA
GTTGCACGTGGATTCATTGGTTTATTGCGACCAACAAGAGGTCGATTCATCTTCCTGGGA
TCAGGCAGTACCGGCGACGGGTTATTAGCTTATACAGCATCAAAGAATGCTGTTGAGGGT
ACAGCTTGTGCGTTACGCGATGAATTAAAACCCTATGGCGTTTCAGTTGTTACCTTGGAT
ACCACAGGTGTTGCTGCAGAAACTTTATATAAATCTCCAATTCCATTCACAATCTCTGAT
ATTGAAGGCATTCCTACTCAATATTCGGCTGAAGTCTTGACACACTCTTCACTACAAGTC
ATCGAAAGGGCATTATTTGATCCACGACCATATGATAGCTATTCACTCTCTGTGCCACAA
AATAAATTTATATGTAATTTACCCTGTCGTTCTGAATTTGTTCGTTCTAGAAATCACTCT
TTTATTCAAAAAGTCTAA

>g10043.t2 Gene=g10043 Length=231
MKARENALDLESECVIGTIVPLKVDVTKEDVIREAAEKMGAHLNASERGILAVVNTAGSI
FRGRMDSQELHEWECMFKHNVLGCLRVARGFIGLLRPTRGRFIFLGSGSTGDGLLAYTAS
KNAVEGTACALRDELKPYGVSVVTLDTTGVAAETLYKSPIPFTISDIEGIPTQYSAEVLT
HSSLQVIERALFDPRPYDSYSLSVPQNKFICNLPCRSEFVRSRNHSFIQKV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g10043.t2 Gene3D G3DSA:3.40.50.720 - 2 210 0
2 g10043.t2 PANTHER PTHR43313:SF36 GH26015P 18 145 0
3 g10043.t2 PANTHER PTHR43313 SHORT-CHAIN DEHYDROGENASE/REDUCTASE FAMILY 9C 18 145 0
1 g10043.t2 Pfam PF00106 short chain dehydrogenase 17 154 0
4 g10043.t2 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 16 155 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

## [1] "No matching GO terms"

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