Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Krueppel homolog 2.

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 g4246 g4246.t11 TSS g4246.t11 605910 605910
chr_2 g4246 g4246.t11 isoform g4246.t11 605991 608312
chr_2 g4246 g4246.t11 exon g4246.t11.exon1 605991 606003
chr_2 g4246 g4246.t11 exon g4246.t11.exon2 606378 606558
chr_2 g4246 g4246.t11 cds g4246.t11.CDS1 606404 606558
chr_2 g4246 g4246.t11 exon g4246.t11.exon3 606744 606993
chr_2 g4246 g4246.t11 cds g4246.t11.CDS2 606744 606993
chr_2 g4246 g4246.t11 exon g4246.t11.exon4 607409 607490
chr_2 g4246 g4246.t11 cds g4246.t11.CDS3 607409 607432
chr_2 g4246 g4246.t11 exon g4246.t11.exon5 607559 608312
chr_2 g4246 g4246.t11 TTS g4246.t11 608307 608307

Sequences

>g4246.t11 Gene=g4246 Length=1280
ATTATTCAATATTATAATACACGATAAAATATAGAAAAAATGAGCGATAGTAATTCGACA
GATAATGAAAATCAGCCGCGTGGAATTGAAGCAGTCAAGAATCACATGCTAGAAAATAAG
ATCGAAACTGCATTATGGCTTTCGAGAGTTCTATCAATAGTATTTGCAATCGGCTATCTT
ATTCCTATTTTTGGATCATCTCAAAGTGCGTTTTATAAAGTATTAATTGCTAATGCAATC
ACAAGCGCCCTTCGATTACACCAACGATTGCCGCAAATTCAATTTACAAAGGAATTCTTA
GCATTGCTTTTGATAGAGGATTCATGTCATTATCTATTTTTTTCACTGATATTCCTCTAT
GTGCAGCCTGTTCTCTTAGTTTTGTTCCCAGTAGTTCTTTTTGCCGTTCTTCATTCAGCG
AGTTACTCATTAAAAATGCTTGATAATTTCAACAAAGAAACATTTTGAGATTGATTGCCT
TTTCAGAAATTTTCTTAATGCCTGTCGCAATAATCTCAACATTTACTGGTCGTGCTGGTC
TTATGACACCATTCATTTATTATCATTTTTTGACTCTTCGTTATTCATCTCGTCGTAATC
CACATACCCGAAATATGTTCCACGAACTGAGATTGGCAACAGAAAATATTGCAAATAATC
CTAAAGCACCTCCAATTATTGGAAAAGTATTGCATGGAGCTGTTAGATTGATTTCACGCC
TTGCTCCGGCTCAAATACCACCACAACAACAACACGCCCAGTAAAATATTTTTCCTTCAA
AAAAGTTTTTTTTAATTATTTAACGGGTTTAATTCTGTTTCGTCTTATTTGGTAAAATGG
ATCATTTTTTTGTAGTGTTTTTTTCTATTTTATTATAATACATTATATATTATTGATAAA
CATATTTTAATGTCATCATAATATGTTTAATTAGAGTTTTTTGCGGTATTAAATTTTAAT
ATTACTCGTCTCTTGTGAATTATTCACATACATACATAAAAAATTTTTCGTTGACATGCA
CATACATAAAACTTACATATATATATATATTGAAGAAATAGTAACAATTGTTTAAACAAT
TTAATTCAGAAACAAAAATTGTTTCAAAAATAAAAGACAAACGTGAATGTTTTGAAATAA
TTTGCATCAATTGAAATTTTTGTTTCCCAATAAATATTTGTTTTTATACTCTTATTCACA
ATTTGTTTTTTAATGTGCAATTGTAATAAAATTTCAATTTATCAAATAAAAATTTTCAAA
AAAATACTCTTAATTAAATG

>g4246.t11 Gene=g4246 Length=142
MSDSNSTDNENQPRGIEAVKNHMLENKIETALWLSRVLSIVFAIGYLIPIFGSSQSAFYK
VLIANAITSALRLHQRLPQIQFTKEFLALLLIEDSCHYLFFSLIFLYVQPVLLVLFPVVL
FAVLHSASYSLKMLDNFNKETF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g4246.t11 PANTHER PTHR12703:SF4 TRANSMEMBRANE PROTEIN 33 3 137 8.8E-31
3 g4246.t11 PANTHER PTHR12703 TRANSMEMBRANE PROTEIN 33 3 137 8.8E-31
1 g4246.t11 Pfam PF03661 Transmembrane protein 33/Nucleoporin POM33 12 140 3.1E-49
7 g4246.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 29 -
11 g4246.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 30 51 -
9 g4246.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 52 56 -
13 g4246.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 57 74 -
6 g4246.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 75 85 -
14 g4246.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 108 -
10 g4246.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 109 113 -
12 g4246.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 114 131 -
8 g4246.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 132 142 -
4 g4246.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 32 54 -
5 g4246.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 103 125 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016021 integral component of membrane CC

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