Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t6 TSS g4246.t6 605910 605910
chr_2 g4246 g4246.t6 isoform g4246.t6 605971 608220
chr_2 g4246 g4246.t6 exon g4246.t6.exon1 605971 606003
chr_2 g4246 g4246.t6 exon g4246.t6.exon2 606378 606558
chr_2 g4246 g4246.t6 cds g4246.t6.CDS1 606404 606558
chr_2 g4246 g4246.t6 exon g4246.t6.exon3 606744 606874
chr_2 g4246 g4246.t6 cds g4246.t6.CDS2 606744 606874
chr_2 g4246 g4246.t6 exon g4246.t6.exon4 606941 606993
chr_2 g4246 g4246.t6 cds g4246.t6.CDS3 606941 606993
chr_2 g4246 g4246.t6 exon g4246.t6.exon5 607357 607490
chr_2 g4246 g4246.t6 cds g4246.t6.CDS4 607357 607490
chr_2 g4246 g4246.t6 exon g4246.t6.exon6 607559 608220
chr_2 g4246 g4246.t6 cds g4246.t6.CDS5 607559 607796
chr_2 g4246 g4246.t6 TTS g4246.t6 608224 608224

Sequences

>g4246.t6 Gene=g4246 Length=1194
AGTATTATACAAAGCAAATAATTATTCAATATTATAATACACGATAAAATATAGAAAAAA
TGAGCGATAGTAATTCGACAGATAATGAAAATCAGCCGCGTGGAATTGAAGCAGTCAAGA
ATCACATGCTAGAAAATAAGATCGAAACTGCATTATGGCTTTCGAGAGTTCTATCAATAG
TATTTGCAATCGGCTATCTTATTCCTATTTTTGGATCATCTCAAAGTGCGTTTTATAAAG
TATTAATTGCTAATGCAATCACAAGCGCCCTTCGATTACACCAACGATTGCCGCAAATTC
AATTTACAAAGGAATTCTTAGCATTGCTTTTGATAGAGGATTCATTAGTTCTTTTTGCCG
TTCTTCATTCAGCGAGTTACTCATTAAAAATGCTTGATTTACTCGGTCAAAACTCTTGGT
GGGGTGCGAGATTATTGATTTCACTTGTAGAATTTCAACAAAGAAACATTTTGAGATTGA
TTGCCTTTTCAGAAATTTTCTTAATGCCTGTCGCAATAATCTCAACATTTACTGGTCGTG
CTGGTCTTATGACACCATTCATTTATTATCATTTTTTGACTCTTCGTTATTCATCTCGTC
GTAATCCACATACCCGAAATATGTTCCACGAACTGAGATTGGCAACAGAAAATATTGCAA
ATAATCCTAAAGCACCTCCAATTATTGGAAAAGTATTGCATGGAGCTGTTAGATTGATTT
CACGCCTTGCTCCGGCTCAAATACCACCACAACAACAACACGCCCAGTAAAATATTTTTC
CTTCAAAAAAGTTTTTTTTAATTATTTAACGGGTTTAATTCTGTTTCGTCTTATTTGGTA
AAATGGATCATTTTTTTGTAGTGTTTTTTTCTATTTTATTATAATACATTATATATTATT
GATAAACATATTTTAATGTCATCATAATATGTTTAATTAGAGTTTTTTGCGGTATTAAAT
TTTAATATTACTCGTCTCTTGTGAATTATTCACATACATACATAAAAAATTTTTCGTTGA
CATGCACATACATAAAACTTACATATATATATATATTGAAGAAATAGTAACAATTGTTTA
AACAATTTAATTCAGAAACAAAAATTGTTTCAAAAATAAAAGACAAACGTGAATGTTTTG
AAATAATTTGCATCAATTGAAATTTTTGTTTCCCAATAAATATTTGTTTTTATA

>g4246.t6 Gene=g4246 Length=236
MSDSNSTDNENQPRGIEAVKNHMLENKIETALWLSRVLSIVFAIGYLIPIFGSSQSAFYK
VLIANAITSALRLHQRLPQIQFTKEFLALLLIEDSLVLFAVLHSASYSLKMLDLLGQNSW
WGARLLISLVEFQQRNILRLIAFSEIFLMPVAIISTFTGRAGLMTPFIYYHFLTLRYSSR
RNPHTRNMFHELRLATENIANNPKAPPIIGKVLHGAVRLISRLAPAQIPPQQQHAQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
3 g4246.t6 PANTHER PTHR12703:SF4 TRANSMEMBRANE PROTEIN 33 3 95 5.2E-49
5 g4246.t6 PANTHER PTHR12703 TRANSMEMBRANE PROTEIN 33 3 95 5.2E-49
4 g4246.t6 PANTHER PTHR12703:SF4 TRANSMEMBRANE PROTEIN 33 96 234 5.2E-49
6 g4246.t6 PANTHER PTHR12703 TRANSMEMBRANE PROTEIN 33 96 234 5.2E-49
2 g4246.t6 Pfam PF03661 Transmembrane protein 33/Nucleoporin POM33 12 95 1.0E-26
1 g4246.t6 Pfam PF03661 Transmembrane protein 33/Nucleoporin POM33 97 225 2.0E-53
12 g4246.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 29 -
15 g4246.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 30 51 -
13 g4246.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 52 56 -
16 g4246.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 57 74 -
11 g4246.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 75 85 -
17 g4246.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 105 -
14 g4246.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 106 145 -
18 g4246.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 146 172 -
10 g4246.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 173 236 -
7 g4246.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 32 54 -
9 g4246.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 86 108 -
8 g4246.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 151 173 -

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.

Raw TPM values