Gene loci information

Transcript annotation

  • This transcript has been annotated as Importin subunit alpha-3.

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.t5 TTS g12718.t5 25442002 25442002
chr_1 g12718 g12718.t5 isoform g12718.t5 25442717 25444161
chr_1 g12718 g12718.t5 exon g12718.t5.exon1 25442717 25442986
chr_1 g12718 g12718.t5 cds g12718.t5.CDS1 25442717 25442986
chr_1 g12718 g12718.t5 exon g12718.t5.exon2 25443042 25443872
chr_1 g12718 g12718.t5 cds g12718.t5.CDS2 25443042 25443872
chr_1 g12718 g12718.t5 exon g12718.t5.exon3 25443931 25444161
chr_1 g12718 g12718.t5 cds g12718.t5.CDS3 25443931 25444158
chr_1 g12718 g12718.t5 TSS g12718.t5 25444831 25444831

Sequences

>g12718.t5 Gene=g12718 Length=1332
GTAATGTCTGCAGGTAATGATGGTGATCCTGAAGATCAATTACAAGCAGTACAAACAGCA
CGTCGTTTACTCTCGTCTGACCGCAATCCGCCTATTGATGAGTTGATAAAAAGTGGAATC
TTGCCAATTCTTGTACGTTGTTTAGAACGCGATGAAAATCAGATGTTGCAATTCGAAGCA
GCATGGGCTTTAACAAATATTGCATCCGGCACATCACAACAGACTAATTTAGTAGTTAAT
GCTGGAGCTGTTCCATTATTTATTCGACTTTTAATGTCACCAGCAGCAAATGTTTGTGAA
CAAGCAGTTTGGGCATTGGGAAATATTATTGGTGATGGGCCACAATTGCGAGATTATGTT
ATAAAATTGGGAGTTGTACAGCCATTACTATCGTTTGTGAAGCCCGATATTCCAATCAGT
TTTCTTCGTAATGTAACATGGGTAATTGTCAATTTATGCCGCAACAAAGATCCACCACCA
CCAATTCAAACAATCAATCAAATTCTTCCGGCACTTTGTCATCTTATTCACAATCCAGAT
GTCAATATTCTCGTCGATACTGTATGGGCTTTGAGTTATTTAACGGATGGTGGAAATGAA
CAAATTCAATTGGTCATCGATAGTGGTGTTGTTCCGCATTTGATTCCATTATTATCACAT
GTTGAAGTAAAGGTACAAACTGCTGCTCTTCGTGCTGTAGGCAATATAGTTACAGGATCA
GATGAGCAGACGCAAGTTGTACTCAATTATAATGCATTATCACATTTTCCGGCCCTCTTG
AGTCATCCCAAAGAGAAAATTCGCAAAGAGGCAGTGTGGTTTTTGTCTAATATCACAGCT
GGTGTACAAACACAAGTTCAAGCGGTCATTGATGCAGGTTTATTGCCGAAAATTATTGAA
AATTTGTCAAAAGGAGAATTTCAGACGCAGAAAGAAGCTGCTTGGGCAATCAGTAATTTG
ACGATCAGTGGCAATAAGGAGCAAGTGGCAGAATTAATCAAAGCAGGAGCAATTCCACCT
TTCTGCGAATTACTAAGATGTCATGATACTCAAGTTATCAATGTAATTTTGGATGGTATC
AATAATATGCTAAAAATGGCAGGTCCAAATGCAGAACAAATTGCTATGCTAATAGAAGAA
TGCGATGGTTTAACGAAAATCGAGGATCTGCAAAATCATGAGAATGTCGAAATTTATAAG
CTGGCATATGATATTATTGAGCAGTACTTTAGCGATGAAGTTGGCGAAGATGATGCTGGT
ATTAATCCACAAGTAGATGACGGTGGCAACTTCCAATTTAATCCAAATCAAAATCTTGAA
TTCAACTTTTAA

>g12718.t5 Gene=g12718 Length=442
MSAGNDGDPEDQLQAVQTARRLLSSDRNPPIDELIKSGILPILVRCLERDENQMLQFEAA
WALTNIASGTSQQTNLVVNAGAVPLFIRLLMSPAANVCEQAVWALGNIIGDGPQLRDYVI
KLGVVQPLLSFVKPDIPISFLRNVTWVIVNLCRNKDPPPPIQTINQILPALCHLIHNPDV
NILVDTVWALSYLTDGGNEQIQLVIDSGVVPHLIPLLSHVEVKVQTAALRAVGNIVTGSD
EQTQVVLNYNALSHFPALLSHPKEKIRKEAVWFLSNITAGVQTQVQAVIDAGLLPKIIEN
LSKGEFQTQKEAAWAISNLTISGNKEQVAELIKAGAIPPFCELLRCHDTQVINVILDGIN
NMLKMAGPNAEQIAMLIEECDGLTKIEDLQNHENVEIYKLAYDIIEQYFSDEVGEDDAGI
NPQVDDGGNFQFNPNQNLEFNF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g12718.t5 Gene3D G3DSA:1.25.10.10 - 1 411 0.0000000
10 g12718.t5 PANTHER PTHR23316 IMPORTIN ALPHA 6 432 0.0000000
11 g12718.t5 PANTHER PTHR23316:SF28 IMPORTIN SUBUNIT ALPHA 6 432 0.0000000
24 g12718.t5 PIRSF PIRSF005673 Importin_alpha 1 442 0.0000000
5 g12718.t5 Pfam PF00514 Armadillo/beta-catenin-like repeat 28 68 0.0000000
2 g12718.t5 Pfam PF00514 Armadillo/beta-catenin-like repeat 71 108 0.0000000
9 g12718.t5 Pfam PF00514 Armadillo/beta-catenin-like repeat 113 153 0.0000034
8 g12718.t5 Pfam PF00514 Armadillo/beta-catenin-like repeat 157 194 0.0000014
3 g12718.t5 Pfam PF00514 Armadillo/beta-catenin-like repeat 198 236 0.0000000
6 g12718.t5 Pfam PF00514 Armadillo/beta-catenin-like repeat 239 279 0.0000000
7 g12718.t5 Pfam PF00514 Armadillo/beta-catenin-like repeat 284 320 0.0000000
4 g12718.t5 Pfam PF00514 Armadillo/beta-catenin-like repeat 324 362 0.0000110
1 g12718.t5 Pfam PF16186 Atypical Arm repeat 371 422 0.0000000
23 g12718.t5 ProSiteProfiles PS50176 Armadillo/plakoglobin ARM repeat profile. 38 81 10.2720000
22 g12718.t5 ProSiteProfiles PS50176 Armadillo/plakoglobin ARM repeat profile. 81 108 9.4320000
15 g12718.t5 SMART SM00185 arm_5 27 68 0.0000000
18 g12718.t5 SMART SM00185 arm_5 70 110 0.0000002
17 g12718.t5 SMART SM00185 arm_5 112 153 5.5000000
14 g12718.t5 SMART SM00185 arm_5 156 195 0.0015000
16 g12718.t5 SMART SM00185 arm_5 197 237 0.0000000
20 g12718.t5 SMART SM00185 arm_5 239 279 0.0000002
19 g12718.t5 SMART SM00185 arm_5 280 321 0.0002400
13 g12718.t5 SMART SM00185 arm_5 324 364 0.0005100
12 g12718.t5 SUPERFAMILY SSF48371 ARM repeat 5 409 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
GO:0061608 nuclear import signal receptor activity MF
GO:0006606 protein import into nucleus BP
GO:0005737 cytoplasm 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