Gene loci information

Transcript annotation

  • This transcript has been annotated as Importin subunit alpha-4.

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 g12718 g12718.t8 isoform g12718.t8 25443485 25444655
chr_1 g12718 g12718.t8 exon g12718.t8.exon1 25443485 25443872
chr_1 g12718 g12718.t8 cds g12718.t8.CDS1 25443486 25443872
chr_1 g12718 g12718.t8 exon g12718.t8.exon2 25443931 25444161
chr_1 g12718 g12718.t8 cds g12718.t8.CDS2 25443931 25444158
chr_1 g12718 g12718.t8 exon g12718.t8.exon3 25444384 25444528
chr_1 g12718 g12718.t8 exon g12718.t8.exon4 25444605 25444655
chr_1 g12718 g12718.t8 TSS g12718.t8 25444831 25444831
chr_1 g12718 g12718.t8 TTS g12718.t8 NA NA

Sequences

>g12718.t8 Gene=g12718 Length=815
ATGGAGAATCATCGAAATAATTTATTTAAAAATAAAGGAAAAGATCAAGATGAGATGAGA
AGAAGGAGAACTGAAGTCTCAATTGAACTACGTAAAAACAAAAGAGAAGATACAATTCAA
AAACGCAGAAATATTTATCAGTCAGAAACTTCCGACGATGATCTATTATCTGTTCCCAAT
TTGAAAAAACTGGTAAGTAATGTCTGCAGGTAATGATGGTGATCCTGAAGATCAATTACA
AGCAGTACAAACAGCACGTCGTTTACTCTCGTCTGACCGCAATCCGCCTATTGATGAGTT
GATAAAAAGTGGAATCTTGCCAATTCTTGTACGTTGTTTAGAACGCGATGAAAATCAGAT
GTTGCAATTCGAAGCAGCATGGGCTTTAACAAATATTGCATCCGGCACATCACAACAGAC
TAATTTAGTAGTTAATGCTGGAGCTGTTCCATTATTTATTCGACTTTTAATGTCACCAGC
AGCAAATGTTTGTGAACAAGCAGTTTGGGCATTGGGAAATATTATTGGTGATGGGCCACA
ATTGCGAGATTATGTTATAAAATTGGGAGTTGTACAGCCATTACTATCGTTTGTGAAGCC
CGATATTCCAATCAGTTTTCTTCGTAATGTAACATGGGTAATTGTCAATTTATGCCGCAA
CAAAGATCCACCACCACCAATTCAAACAATCAATCAAATTCTTCCGGCACTTTGTCATCT
TATTCACAATCCAGATGTCAATATTCTCGTCGATACTGTATGGGCTTTGAGTTATTTAAC
GGATGGTGGAAATGAACAAATTCAATTGGTCATCG

>g12718.t8 Gene=g12718 Length=205
MSAGNDGDPEDQLQAVQTARRLLSSDRNPPIDELIKSGILPILVRCLERDENQMLQFEAA
WALTNIASGTSQQTNLVVNAGAVPLFIRLLMSPAANVCEQAVWALGNIIGDGPQLRDYVI
KLGVVQPLLSFVKPDIPISFLRNVTWVIVNLCRNKDPPPPIQTINQILPALCHLIHNPDV
NILVDTVWALSYLTDGGNEQIQLVI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g12718.t8 Gene3D G3DSA:1.25.10.10 - 1 205 0.0000000
5 g12718.t8 PANTHER PTHR23316 IMPORTIN ALPHA 6 205 0.0000000
6 g12718.t8 PANTHER PTHR23316:SF28 IMPORTIN SUBUNIT ALPHA 6 205 0.0000000
4 g12718.t8 Pfam PF00514 Armadillo/beta-catenin-like repeat 28 68 0.0000000
1 g12718.t8 Pfam PF00514 Armadillo/beta-catenin-like repeat 71 108 0.0000000
3 g12718.t8 Pfam PF00514 Armadillo/beta-catenin-like repeat 113 153 0.0000011
2 g12718.t8 Pfam PF00514 Armadillo/beta-catenin-like repeat 157 194 0.0000005
14 g12718.t8 ProSiteProfiles PS50176 Armadillo/plakoglobin ARM repeat profile. 38 81 10.2720000
13 g12718.t8 ProSiteProfiles PS50176 Armadillo/plakoglobin ARM repeat profile. 81 108 9.4320000
10 g12718.t8 SMART SM00185 arm_5 27 68 0.0000000
8 g12718.t8 SMART SM00185 arm_5 70 110 0.0000002
11 g12718.t8 SMART SM00185 arm_5 112 153 5.5000000
9 g12718.t8 SMART SM00185 arm_5 156 195 0.0015000
7 g12718.t8 SUPERFAMILY SSF48371 ARM repeat 5 204 0.0000000

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:0005515 protein binding MF

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