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.t7 TSS g4246.t7 605910 605910
chr_2 g4246 g4246.t7 isoform g4246.t7 605971 608312
chr_2 g4246 g4246.t7 exon g4246.t7.exon1 605971 606003
chr_2 g4246 g4246.t7 exon g4246.t7.exon2 606378 606558
chr_2 g4246 g4246.t7 cds g4246.t7.CDS1 606404 606558
chr_2 g4246 g4246.t7 exon g4246.t7.exon3 606744 606993
chr_2 g4246 g4246.t7 cds g4246.t7.CDS2 606744 606993
chr_2 g4246 g4246.t7 exon g4246.t7.exon4 607357 607494
chr_2 g4246 g4246.t7 cds g4246.t7.CDS3 607357 607494
chr_2 g4246 g4246.t7 exon g4246.t7.exon5 607559 608312
chr_2 g4246 g4246.t7 TTS g4246.t7 608307 608307

Sequences

>g4246.t7 Gene=g4246 Length=1356
AGTATTATACAAAGCAAATAATTATTCAATATTATAATACACGATAAAATATAGAAAAAA
TGAGCGATAGTAATTCGACAGATAATGAAAATCAGCCGCGTGGAATTGAAGCAGTCAAGA
ATCACATGCTAGAAAATAAGATCGAAACTGCATTATGGCTTTCGAGAGTTCTATCAATAG
TATTTGCAATCGGCTATCTTATTCCTATTTTTGGATCATCTCAAAGTGCGTTTTATAAAG
TATTAATTGCTAATGCAATCACAAGCGCCCTTCGATTACACCAACGATTGCCGCAAATTC
AATTTACAAAGGAATTCTTAGCATTGCTTTTGATAGAGGATTCATGTCATTATCTATTTT
TTTCACTGATATTCCTCTATGTGCAGCCTGTTCTCTTAGTTTTGTTCCCAGTAGTTCTTT
TTGCCGTTCTTCATTCAGCGAGTTACTCATTAAAAATGCTTGATTTACTCGGTCAAAACT
CTTGGTGGGGTGCGAGATTATTGATTTCACTTGTAGAATTTCAACAAAGAAACATTTTGA
GATTGATTGCCTTTTCAGAAATTTTCTTAATGCCTGTCGCAATAATCTCAACATTTACGT
AATGGTCGTGCTGGTCTTATGACACCATTCATTTATTATCATTTTTTGACTCTTCGTTAT
TCATCTCGTCGTAATCCACATACCCGAAATATGTTCCACGAACTGAGATTGGCAACAGAA
AATATTGCAAATAATCCTAAAGCACCTCCAATTATTGGAAAAGTATTGCATGGAGCTGTT
AGATTGATTTCACGCCTTGCTCCGGCTCAAATACCACCACAACAACAACACGCCCAGTAA
AATATTTTTCCTTCAAAAAAGTTTTTTTTAATTATTTAACGGGTTTAATTCTGTTTCGTC
TTATTTGGTAAAATGGATCATTTTTTTGTAGTGTTTTTTTCTATTTTATTATAATACATT
ATATATTATTGATAAACATATTTTAATGTCATCATAATATGTTTAATTAGAGTTTTTTGC
GGTATTAAATTTTAATATTACTCGTCTCTTGTGAATTATTCACATACATACATAAAAAAT
TTTTCGTTGACATGCACATACATAAAACTTACATATATATATATATTGAAGAAATAGTAA
CAATTGTTTAAACAATTTAATTCAGAAACAAAAATTGTTTCAAAAATAAAAGACAAACGT
GAATGTTTTGAAATAATTTGCATCAATTGAAATTTTTGTTTCCCAATAAATATTTGTTTT
TATACTCTTATTCACAATTTGTTTTTTAATGTGCAATTGTAATAAAATTTCAATTTATCA
AATAAAAATTTTCAAAAAAATACTCTTAATTAAATG

>g4246.t7 Gene=g4246 Length=180
MSDSNSTDNENQPRGIEAVKNHMLENKIETALWLSRVLSIVFAIGYLIPIFGSSQSAFYK
VLIANAITSALRLHQRLPQIQFTKEFLALLLIEDSCHYLFFSLIFLYVQPVLLVLFPVVL
FAVLHSASYSLKMLDLLGQNSWWGARLLISLVEFQQRNILRLIAFSEIFLMPVAIISTFT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g4246.t7 PANTHER PTHR12703:SF4 TRANSMEMBRANE PROTEIN 33 3 180 2.7E-41
3 g4246.t7 PANTHER PTHR12703 TRANSMEMBRANE PROTEIN 33 3 180 2.7E-41
1 g4246.t7 Pfam PF03661 Transmembrane protein 33/Nucleoporin POM33 12 179 9.2E-67
9 g4246.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 29 -
13 g4246.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 30 51 -
10 g4246.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 52 56 -
15 g4246.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 57 74 -
8 g4246.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 75 85 -
17 g4246.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 108 -
12 g4246.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 109 113 -
16 g4246.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 114 138 -
7 g4246.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 139 158 -
14 g4246.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 159 179 -
11 g4246.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 180 180 -
4 g4246.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 32 54 -
5 g4246.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 103 125 -
6 g4246.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 162 179 -

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