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.t14 TSS g4246.t14 605910 605910
chr_2 g4246 g4246.t14 isoform g4246.t14 606061 608312
chr_2 g4246 g4246.t14 exon g4246.t14.exon1 606061 606199
chr_2 g4246 g4246.t14 exon g4246.t14.exon2 606378 606558
chr_2 g4246 g4246.t14 cds g4246.t14.CDS1 606404 606558
chr_2 g4246 g4246.t14 exon g4246.t14.exon3 606744 606993
chr_2 g4246 g4246.t14 cds g4246.t14.CDS2 606744 606993
chr_2 g4246 g4246.t14 exon g4246.t14.exon4 607357 607490
chr_2 g4246 g4246.t14 cds g4246.t14.CDS3 607357 607490
chr_2 g4246 g4246.t14 exon g4246.t14.exon5 607559 608312
chr_2 g4246 g4246.t14 cds g4246.t14.CDS4 607559 607796
chr_2 g4246 g4246.t14 TTS g4246.t14 608307 608307

Sequences

>g4246.t14 Gene=g4246 Length=1458
TCAAATACTACAGCCTACAAATATAAATCAAGAAATGGAGTGAAAAAACCTGTTTCGGTC
AGAAATTAAAAAAAATTAAAGATCATCTCCTATATCTCTTCGATATAAAAACATTTTCAA
GGACTTTTTGGTTTATAAAATAATACACGATAAAATATAGAAAAAATGAGCGATAGTAAT
TCGACAGATAATGAAAATCAGCCGCGTGGAATTGAAGCAGTCAAGAATCACATGCTAGAA
AATAAGATCGAAACTGCATTATGGCTTTCGAGAGTTCTATCAATAGTATTTGCAATCGGC
TATCTTATTCCTATTTTTGGATCATCTCAAAGTGCGTTTTATAAAGTATTAATTGCTAAT
GCAATCACAAGCGCCCTTCGATTACACCAACGATTGCCGCAAATTCAATTTACAAAGGAA
TTCTTAGCATTGCTTTTGATAGAGGATTCATGTCATTATCTATTTTTTTCACTGATATTC
CTCTATGTGCAGCCTGTTCTCTTAGTTTTGTTCCCAGTAGTTCTTTTTGCCGTTCTTCAT
TCAGCGAGTTACTCATTAAAAATGCTTGATTTACTCGGTCAAAACTCTTGGTGGGGTGCG
AGATTATTGATTTCACTTGTAGAATTTCAACAAAGAAACATTTTGAGATTGATTGCCTTT
TCAGAAATTTTCTTAATGCCTGTCGCAATAATCTCAACATTTACTGGTCGTGCTGGTCTT
ATGACACCATTCATTTATTATCATTTTTTGACTCTTCGTTATTCATCTCGTCGTAATCCA
CATACCCGAAATATGTTCCACGAACTGAGATTGGCAACAGAAAATATTGCAAATAATCCT
AAAGCACCTCCAATTATTGGAAAAGTATTGCATGGAGCTGTTAGATTGATTTCACGCCTT
GCTCCGGCTCAAATACCACCACAACAACAACACGCCCAGTAAAATATTTTTCCTTCAAAA
AAGTTTTTTTTAATTATTTAACGGGTTTAATTCTGTTTCGTCTTATTTGGTAAAATGGAT
CATTTTTTTGTAGTGTTTTTTTCTATTTTATTATAATACATTATATATTATTGATAAACA
TATTTTAATGTCATCATAATATGTTTAATTAGAGTTTTTTGCGGTATTAAATTTTAATAT
TACTCGTCTCTTGTGAATTATTCACATACATACATAAAAAATTTTTCGTTGACATGCACA
TACATAAAACTTACATATATATATATATTGAAGAAATAGTAACAATTGTTTAAACAATTT
AATTCAGAAACAAAAATTGTTTCAAAAATAAAAGACAAACGTGAATGTTTTGAAATAATT
TGCATCAATTGAAATTTTTGTTTCCCAATAAATATTTGTTTTTATACTCTTATTCACAAT
TTGTTTTTTAATGTGCAATTGTAATAAAATTTCAATTTATCAAATAAAAATTTTCAAAAA
AATACTCTTAATTAAATG

>g4246.t14 Gene=g4246 Length=258
MSDSNSTDNENQPRGIEAVKNHMLENKIETALWLSRVLSIVFAIGYLIPIFGSSQSAFYK
VLIANAITSALRLHQRLPQIQFTKEFLALLLIEDSCHYLFFSLIFLYVQPVLLVLFPVVL
FAVLHSASYSLKMLDLLGQNSWWGARLLISLVEFQQRNILRLIAFSEIFLMPVAIISTFT
GRAGLMTPFIYYHFLTLRYSSRRNPHTRNMFHELRLATENIANNPKAPPIIGKVLHGAVR
LISRLAPAQIPPQQQHAQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g4246.t14 PANTHER PTHR12703:SF4 TRANSMEMBRANE PROTEIN 33 3 256 4.4E-65
3 g4246.t14 PANTHER PTHR12703 TRANSMEMBRANE PROTEIN 33 3 256 4.4E-65
1 g4246.t14 Pfam PF03661 Transmembrane protein 33/Nucleoporin POM33 12 247 2.4E-99
10 g4246.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 29 -
14 g4246.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 30 51 -
11 g4246.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 52 56 -
17 g4246.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 57 74 -
9 g4246.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 75 85 -
19 g4246.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 108 -
13 g4246.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 109 113 -
18 g4246.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 114 138 -
7 g4246.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 139 158 -
16 g4246.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 159 177 -
12 g4246.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 178 182 -
15 g4246.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 183 200 -
8 g4246.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 201 258 -
4 g4246.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 32 54 -
5 g4246.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 103 125 -
6 g4246.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 159 181 -

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

Pathway

  • This transcript belongs to the following pathways

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