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.t6 TTS g12718.t6 25442002 25442002
chr_1 g12718 g12718.t6 isoform g12718.t6 25442717 25444655
chr_1 g12718 g12718.t6 exon g12718.t6.exon1 25442717 25442986
chr_1 g12718 g12718.t6 cds g12718.t6.CDS1 25442717 25442986
chr_1 g12718 g12718.t6 exon g12718.t6.exon2 25443042 25443872
chr_1 g12718 g12718.t6 cds g12718.t6.CDS2 25443042 25443872
chr_1 g12718 g12718.t6 exon g12718.t6.exon3 25443931 25444161
chr_1 g12718 g12718.t6 cds g12718.t6.CDS3 25443931 25444161
chr_1 g12718 g12718.t6 exon g12718.t6.exon4 25444388 25444514
chr_1 g12718 g12718.t6 cds g12718.t6.CDS4 25444388 25444514
chr_1 g12718 g12718.t6 exon g12718.t6.exon5 25444605 25444655
chr_1 g12718 g12718.t6 cds g12718.t6.CDS5 25444605 25444606
chr_1 g12718 g12718.t6 TSS g12718.t6 25444831 25444831

Sequences

>g12718.t6 Gene=g12718 Length=1510
ATGGAGAATCATCGAAATAATTTATTTAAAAATAAAGGAAAAGATCAAGATGAGAACTGA
AGTCTCAATTGAACTACGTAAAAACAAAAGAGAAGATACAATTCAAAAACGCAGAAATAT
TTATCAGTCAGAAACTTCCGACGATGATCTATTATCTGTTCCCAATTTGAAAAAACTGGT
AATGTCTGCAGGTAATGATGGTGATCCTGAAGATCAATTACAAGCAGTACAAACAGCACG
TCGTTTACTCTCGTCTGACCGCAATCCGCCTATTGATGAGTTGATAAAAAGTGGAATCTT
GCCAATTCTTGTACGTTGTTTAGAACGCGATGAAAATCAGATGTTGCAATTCGAAGCAGC
ATGGGCTTTAACAAATATTGCATCCGGCACATCACAACAGACTAATTTAGTAGTTAATGC
TGGAGCTGTTCCATTATTTATTCGACTTTTAATGTCACCAGCAGCAAATGTTTGTGAACA
AGCAGTTTGGGCATTGGGAAATATTATTGGTGATGGGCCACAATTGCGAGATTATGTTAT
AAAATTGGGAGTTGTACAGCCATTACTATCGTTTGTGAAGCCCGATATTCCAATCAGTTT
TCTTCGTAATGTAACATGGGTAATTGTCAATTTATGCCGCAACAAAGATCCACCACCACC
AATTCAAACAATCAATCAAATTCTTCCGGCACTTTGTCATCTTATTCACAATCCAGATGT
CAATATTCTCGTCGATACTGTATGGGCTTTGAGTTATTTAACGGATGGTGGAAATGAACA
AATTCAATTGGTCATCGATAGTGGTGTTGTTCCGCATTTGATTCCATTATTATCACATGT
TGAAGTAAAGGTACAAACTGCTGCTCTTCGTGCTGTAGGCAATATAGTTACAGGATCAGA
TGAGCAGACGCAAGTTGTACTCAATTATAATGCATTATCACATTTTCCGGCCCTCTTGAG
TCATCCCAAAGAGAAAATTCGCAAAGAGGCAGTGTGGTTTTTGTCTAATATCACAGCTGG
TGTACAAACACAAGTTCAAGCGGTCATTGATGCAGGTTTATTGCCGAAAATTATTGAAAA
TTTGTCAAAAGGAGAATTTCAGACGCAGAAAGAAGCTGCTTGGGCAATCAGTAATTTGAC
GATCAGTGGCAATAAGGAGCAAGTGGCAGAATTAATCAAAGCAGGAGCAATTCCACCTTT
CTGCGAATTACTAAGATGTCATGATACTCAAGTTATCAATGTAATTTTGGATGGTATCAA
TAATATGCTAAAAATGGCAGGTCCAAATGCAGAACAAATTGCTATGCTAATAGAAGAATG
CGATGGTTTAACGAAAATCGAGGATCTGCAAAATCATGAGAATGTCGAAATTTATAAGCT
GGCATATGATATTATTGAGCAGTACTTTAGCGATGAAGTTGGCGAAGATGATGCTGGTAT
TAATCCACAAGTAGATGACGGTGGCAACTTCCAATTTAATCCAAATCAAAATCTTGAATT
CAACTTTTAA

>g12718.t6 Gene=g12718 Length=486
MRTEVSIELRKNKREDTIQKRRNIYQSETSDDDLLSVPNLKKLVMSAGNDGDPEDQLQAV
QTARRLLSSDRNPPIDELIKSGILPILVRCLERDENQMLQFEAAWALTNIASGTSQQTNL
VVNAGAVPLFIRLLMSPAANVCEQAVWALGNIIGDGPQLRDYVIKLGVVQPLLSFVKPDI
PISFLRNVTWVIVNLCRNKDPPPPIQTINQILPALCHLIHNPDVNILVDTVWALSYLTDG
GNEQIQLVIDSGVVPHLIPLLSHVEVKVQTAALRAVGNIVTGSDEQTQVVLNYNALSHFP
ALLSHPKEKIRKEAVWFLSNITAGVQTQVQAVIDAGLLPKIIENLSKGEFQTQKEAAWAI
SNLTISGNKEQVAELIKAGAIPPFCELLRCHDTQVINVILDGINNMLKMAGPNAEQIAML
IEECDGLTKIEDLQNHENVEIYKLAYDIIEQYFSDEVGEDDAGINPQVDDGGNFQFNPNQ
NLEFNF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
23 g12718.t6 Gene3D G3DSA:1.20.5.690 Single helix bin 1 24 0.0000001
22 g12718.t6 Gene3D G3DSA:1.25.10.10 - 37 455 0.0000000
11 g12718.t6 PANTHER PTHR23316 IMPORTIN ALPHA 2 476 0.0000000
12 g12718.t6 PANTHER PTHR23316:SF28 IMPORTIN SUBUNIT ALPHA 2 476 0.0000000
27 g12718.t6 PIRSF PIRSF005673 Importin_alpha 1 486 0.0000000
1 g12718.t6 Pfam PF01749 Importin beta binding domain 2 61 0.0000000
10 g12718.t6 Pfam PF00514 Armadillo/beta-catenin-like repeat 72 112 0.0000000
3 g12718.t6 Pfam PF00514 Armadillo/beta-catenin-like repeat 115 152 0.0000000
8 g12718.t6 Pfam PF00514 Armadillo/beta-catenin-like repeat 157 197 0.0000038
4 g12718.t6 Pfam PF00514 Armadillo/beta-catenin-like repeat 201 238 0.0000016
6 g12718.t6 Pfam PF00514 Armadillo/beta-catenin-like repeat 242 280 0.0000000
9 g12718.t6 Pfam PF00514 Armadillo/beta-catenin-like repeat 283 323 0.0000000
7 g12718.t6 Pfam PF00514 Armadillo/beta-catenin-like repeat 328 364 0.0000000
5 g12718.t6 Pfam PF00514 Armadillo/beta-catenin-like repeat 368 406 0.0000120
2 g12718.t6 Pfam PF16186 Atypical Arm repeat 415 466 0.0000000
24 g12718.t6 ProSiteProfiles PS51214 IBB domain profile. 1 31 9.8130000
26 g12718.t6 ProSiteProfiles PS50176 Armadillo/plakoglobin ARM repeat profile. 82 125 10.2720000
25 g12718.t6 ProSiteProfiles PS50176 Armadillo/plakoglobin ARM repeat profile. 125 152 9.4320000
17 g12718.t6 SMART SM00185 arm_5 71 112 0.0000000
16 g12718.t6 SMART SM00185 arm_5 114 154 0.0000002
21 g12718.t6 SMART SM00185 arm_5 156 197 5.5000000
15 g12718.t6 SMART SM00185 arm_5 200 239 0.0015000
18 g12718.t6 SMART SM00185 arm_5 241 281 0.0000000
19 g12718.t6 SMART SM00185 arm_5 283 323 0.0000002
20 g12718.t6 SMART SM00185 arm_5 324 365 0.0002400
14 g12718.t6 SMART SM00185 arm_5 368 408 0.0005100
13 g12718.t6 SUPERFAMILY SSF48371 ARM repeat 2 456 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

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