Gene loci information

Transcript annotation

  • This transcript has been annotated as Importin subunit alpha-7.

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 g8942 g8942.t4 TTS g8942.t4 34005088 34005088
chr_2 g8942 g8942.t4 isoform g8942.t4 34005739 34007044
chr_2 g8942 g8942.t4 exon g8942.t4.exon1 34005739 34006223
chr_2 g8942 g8942.t4 cds g8942.t4.CDS1 34005741 34006223
chr_2 g8942 g8942.t4 exon g8942.t4.exon2 34006278 34006711
chr_2 g8942 g8942.t4 cds g8942.t4.CDS2 34006278 34006703
chr_2 g8942 g8942.t4 exon g8942.t4.exon3 34006988 34007044
chr_2 g8942 g8942.t4 TSS g8942.t4 34007075 34007075

Sequences

>g8942.t4 Gene=g8942 Length=976
AAAAAATTTCAGTGTGAAAAATAAAGATCCTTAATTTGTTTAAATTGGACCATTAAAAGA
CAGACATGAACAGTTCAAGAAATGCTGCTCGCTATAAAAACCAAGGTCTTGATCAGGCTG
AGCTTAGACGACGACGAGAAGAGGAAGGAATTCAGTTGAGAAAACAAAAACGTGAACAAC
AATTAACAAAACGAAGAAACCTTAATCCACAAATTGATGATCAAGATGATGATGACAATT
CTGAAATGCTCACTGATCGCCCTATAGAAATGCAAGAAATTCCATCTCAACAGTCAGCAA
ACACAGTGATTCGTTTCGAGACGGTCCAAGCATTATATAGTTCGAATGTCGCTGATCAAC
TTGCTGCCACACAAAAATTCAGAAAACTTTTGAGCAAAGAACCAAATCCTCCTATTGATG
AAGTAATAAAAACAGGGATTGTTGGTCGCTTTGTCGAGCTTTTAAATAATCATGAAAATA
CAACTCTTCAATTTGAAGCAGCATGGGCTTTAACAAATATTGCATCTGGAACGTCACAGC
AAACACAAGTTGTTTTAGAAGCAAAGGCCATACCAGTTTTTGTGCAATTATTGGAAACAA
GTCATAATAATGATGTGCAAGAGCAAGTTGTTTGGGCACTTGGAAATATTGCAGGTGACT
CAGCCATGTGCCGTGATGAAGTGCTTGATTCAGGAATTTTGGGACCGCTTTTGAAACTTC
TTGAAACAACAACTCGCCTCAACATGTGTCGTAATGGTGTTTGGACGTTATCAAACTTAT
GTAGAGGAAAAAATCCTCCACCAGATTTTCAAAAAGTTTCCAAATGTTTGCCCGTATTGG
CACGTTTTATTTATCATGAGGACAATGAAGTGTTAAGCGATGCCTGTTGGGCATTAAGTT
ATCTAAGTGATGGACCAAACAACAAAATTCAAGCAGTTATTGATGCTGGTGTATGTCGTC
GTCTAGTTGAGTTATT

>g8942.t4 Gene=g8942 Length=303
MNSSRNAARYKNQGLDQAELRRRREEEGIQLRKQKREQQLTKRRNLNPQIDDQDDDDNSE
MLTDRPIEMQEIPSQQSANTVIRFETVQALYSSNVADQLAATQKFRKLLSKEPNPPIDEV
IKTGIVGRFVELLNNHENTTLQFEAAWALTNIASGTSQQTQVVLEAKAIPVFVQLLETSH
NNDVQEQVVWALGNIAGDSAMCRDEVLDSGILGPLLKLLETTTRLNMCRNGVWTLSNLCR
GKNPPPDFQKVSKCLPVLARFIYHEDNEVLSDACWALSYLSDGPNNKIQAVIDAGVCRRL
VEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g8942.t4 Coils Coil Coil 17 37 -
10 g8942.t4 Gene3D G3DSA:1.20.5.690 Single helix bin 6 46 3.7E-15
9 g8942.t4 Gene3D G3DSA:1.25.10.10 - 81 303 8.1E-102
17 g8942.t4 MobiDBLite mobidb-lite consensus disorder prediction 1 58 -
16 g8942.t4 MobiDBLite mobidb-lite consensus disorder prediction 15 51 -
6 g8942.t4 PANTHER PTHR23316 IMPORTIN ALPHA 8 303 1.2E-127
7 g8942.t4 PANTHER PTHR23316:SF8 IMPORTIN SUBUNIT ALPHA-7 8 303 1.2E-127
1 g8942.t4 Pfam PF01749 Importin beta binding domain 8 103 7.6E-22
5 g8942.t4 Pfam PF00514 Armadillo/beta-catenin-like repeat 114 154 3.7E-11
3 g8942.t4 Pfam PF00514 Armadillo/beta-catenin-like repeat 157 196 2.7E-11
4 g8942.t4 Pfam PF00514 Armadillo/beta-catenin-like repeat 201 240 2.3E-7
2 g8942.t4 Pfam PF00514 Armadillo/beta-catenin-like repeat 247 282 2.5E-7
18 g8942.t4 ProSiteProfiles PS51214 IBB domain profile. 1 53 14.038
19 g8942.t4 ProSiteProfiles PS50176 Armadillo/plakoglobin ARM repeat profile. 124 167 9.117
20 g8942.t4 ProSiteProfiles PS50176 Armadillo/plakoglobin ARM repeat profile. 167 196 9.292
13 g8942.t4 SMART SM00185 arm_5 113 154 4.5E-7
15 g8942.t4 SMART SM00185 arm_5 156 197 6.6E-10
14 g8942.t4 SMART SM00185 arm_5 199 240 0.0087
12 g8942.t4 SMART SM00185 arm_5 243 282 5.0
8 g8942.t4 SUPERFAMILY SSF48371 ARM repeat 2 303 1.44E-69

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
GO:0061608 nuclear import signal receptor activity MF
GO:0006606 protein import into nucleus BP

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