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.t7 isoform g12718.t7 25443107 25444655
chr_1 g12718 g12718.t7 exon g12718.t7.exon1 25443107 25443872
chr_1 g12718 g12718.t7 cds g12718.t7.CDS1 25443108 25443872
chr_1 g12718 g12718.t7 exon g12718.t7.exon2 25443931 25444161
chr_1 g12718 g12718.t7 cds g12718.t7.CDS2 25443931 25444161
chr_1 g12718 g12718.t7 exon g12718.t7.exon3 25444388 25444528
chr_1 g12718 g12718.t7 cds g12718.t7.CDS3 25444388 25444528
chr_1 g12718 g12718.t7 exon g12718.t7.exon4 25444605 25444655
chr_1 g12718 g12718.t7 cds g12718.t7.CDS4 25444605 25444655
chr_1 g12718 g12718.t7 TSS g12718.t7 25444831 25444831
chr_1 g12718 g12718.t7 TTS g12718.t7 NA NA

Sequences

>g12718.t7 Gene=g12718 Length=1189
ATGGAGAATCATCGAAATAATTTATTTAAAAATAAAGGAAAAGATCAAGATGAGATGAGA
AGAAGGAGAACTGAAGTCTCAATTGAACTACGTAAAAACAAAAGAGAAGATACAATTCAA
AAACGCAGAAATATTTATCAGTCAGAAACTTCCGACGATGATCTATTATCTGTTCCCAAT
TTGAAAAAACTGGTAATGTCTGCAGGTAATGATGGTGATCCTGAAGATCAATTACAAGCA
GTACAAACAGCACGTCGTTTACTCTCGTCTGACCGCAATCCGCCTATTGATGAGTTGATA
AAAAGTGGAATCTTGCCAATTCTTGTACGTTGTTTAGAACGCGATGAAAATCAGATGTTG
CAATTCGAAGCAGCATGGGCTTTAACAAATATTGCATCCGGCACATCACAACAGACTAAT
TTAGTAGTTAATGCTGGAGCTGTTCCATTATTTATTCGACTTTTAATGTCACCAGCAGCA
AATGTTTGTGAACAAGCAGTTTGGGCATTGGGAAATATTATTGGTGATGGGCCACAATTG
CGAGATTATGTTATAAAATTGGGAGTTGTACAGCCATTACTATCGTTTGTGAAGCCCGAT
ATTCCAATCAGTTTTCTTCGTAATGTAACATGGGTAATTGTCAATTTATGCCGCAACAAA
GATCCACCACCACCAATTCAAACAATCAATCAAATTCTTCCGGCACTTTGTCATCTTATT
CACAATCCAGATGTCAATATTCTCGTCGATACTGTATGGGCTTTGAGTTATTTAACGGAT
GGTGGAAATGAACAAATTCAATTGGTCATCGATAGTGGTGTTGTTCCGCATTTGATTCCA
TTATTATCACATGTTGAAGTAAAGGTACAAACTGCTGCTCTTCGTGCTGTAGGCAATATA
GTTACAGGATCAGATGAGCAGACGCAAGTTGTACTCAATTATAATGCATTATCACATTTT
CCGGCCCTCTTGAGTCATCCCAAAGAGAAAATTCGCAAAGAGGCAGTGTGGTTTTTGTCT
AATATCACAGCTGGTGTACAAACACAAGTTCAAGCGGTCATTGATGCAGGTTTATTGCCG
AAAATTATTGAAAATTTGTCAAAAGGAGAATTTCAGACGCAGAAAGAAGCTGCTTGGGCA
ATCAGTAATTTGACGATCAGTGGCAATAAGGAGCAAGTGGCAGAATTAA

>g12718.t7 Gene=g12718 Length=396
MENHRNNLFKNKGKDQDEMRRRRTEVSIELRKNKREDTIQKRRNIYQSETSDDDLLSVPN
LKKLVMSAGNDGDPEDQLQAVQTARRLLSSDRNPPIDELIKSGILPILVRCLERDENQML
QFEAAWALTNIASGTSQQTNLVVNAGAVPLFIRLLMSPAANVCEQAVWALGNIIGDGPQL
RDYVIKLGVVQPLLSFVKPDIPISFLRNVTWVIVNLCRNKDPPPPIQTINQILPALCHLI
HNPDVNILVDTVWALSYLTDGGNEQIQLVIDSGVVPHLIPLLSHVEVKVQTAALRAVGNI
VTGSDEQTQVVLNYNALSHFPALLSHPKEKIRKEAVWFLSNITAGVQTQVQAVIDAGLLP
KIIENLSKGEFQTQKEAAWAISNLTISGNKEQVAEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g12718.t7 Gene3D G3DSA:1.20.5.690 Single helix bin 4 45 3.6E-18
20 g12718.t7 Gene3D G3DSA:1.25.10.10 - 58 396 1.1E-152
19 g12718.t7 MobiDBLite mobidb-lite consensus disorder prediction 1 24 -
9 g12718.t7 PANTHER PTHR23316 IMPORTIN ALPHA 3 396 4.2E-210
10 g12718.t7 PANTHER PTHR23316:SF28 IMPORTIN SUBUNIT ALPHA 3 396 4.2E-210
1 g12718.t7 Pfam PF01749 Importin beta binding domain 5 82 6.3E-18
7 g12718.t7 Pfam PF00514 Armadillo/beta-catenin-like repeat 93 133 2.9E-12
3 g12718.t7 Pfam PF00514 Armadillo/beta-catenin-like repeat 136 173 1.8E-11
5 g12718.t7 Pfam PF00514 Armadillo/beta-catenin-like repeat 178 218 2.9E-6
8 g12718.t7 Pfam PF00514 Armadillo/beta-catenin-like repeat 222 259 1.2E-6
4 g12718.t7 Pfam PF00514 Armadillo/beta-catenin-like repeat 263 301 3.3E-11
2 g12718.t7 Pfam PF00514 Armadillo/beta-catenin-like repeat 304 344 1.1E-9
6 g12718.t7 Pfam PF00514 Armadillo/beta-catenin-like repeat 349 385 7.5E-9
22 g12718.t7 ProSiteProfiles PS51214 IBB domain profile. 1 52 15.795
24 g12718.t7 ProSiteProfiles PS50176 Armadillo/plakoglobin ARM repeat profile. 103 146 10.272
23 g12718.t7 ProSiteProfiles PS50176 Armadillo/plakoglobin ARM repeat profile. 146 173 9.432
18 g12718.t7 SMART SM00185 arm_5 92 133 5.6E-10
13 g12718.t7 SMART SM00185 arm_5 135 175 2.5E-7
16 g12718.t7 SMART SM00185 arm_5 177 218 5.5
17 g12718.t7 SMART SM00185 arm_5 221 260 0.0015
15 g12718.t7 SMART SM00185 arm_5 262 302 1.4E-8
12 g12718.t7 SMART SM00185 arm_5 304 344 2.4E-7
14 g12718.t7 SMART SM00185 arm_5 345 386 2.4E-4
11 g12718.t7 SUPERFAMILY SSF48371 ARM repeat 3 394 6.99E-103

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