General information for g12718.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Importin subunit alpha-3.
Parent gene
- The parent gene g12718 is located on chr_1: 25443485..25444655 (- strand)
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.t4 | isoform | g12718.t4 | 25441816 | 25444655 |
| chr_1 | g12718 | g12718.t4 | exon | g12718.t4.exon1 | 25441816 | 25442986 |
| chr_1 | g12718 | g12718.t4 | cds | g12718.t4.CDS1 | 25442717 | 25442986 |
| chr_1 | g12718 | g12718.t4 | exon | g12718.t4.exon2 | 25443042 | 25443872 |
| chr_1 | g12718 | g12718.t4 | cds | g12718.t4.CDS2 | 25443042 | 25443872 |
| chr_1 | g12718 | g12718.t4 | exon | g12718.t4.exon3 | 25443931 | 25444161 |
| chr_1 | g12718 | g12718.t4 | cds | g12718.t4.CDS3 | 25443931 | 25444158 |
| chr_1 | g12718 | g12718.t4 | exon | g12718.t4.exon4 | 25444384 | 25444528 |
| chr_1 | g12718 | g12718.t4 | exon | g12718.t4.exon5 | 25444605 | 25444655 |
| chr_1 | g12718 | g12718.t4 | TSS | g12718.t4 | 25444831 | 25444831 |
| chr_1 | g12718 | g12718.t4 | TTS | g12718.t4 | NA | NA |
Sequences
>g12718.t4 Gene=g12718 Length=2429
ATGGAGAATCATCGAAATAATTTATTTAAAAATAAAGGAAAAGATCAAGATGAGATGAGA
AGAAGGAGAACTGAAGTCTCAATTGAACTACGTAAAAACAAAAGAGAAGATACAATTCAA
AAACGCAGAAATATTTATCAGTCAGAAACTTCCGACGATGATCTATTATCTGTTCCCAAT
TTGAAAAAACTGGTAAGTAATGTCTGCAGGTAATGATGGTGATCCTGAAGATCAATTACA
AGCAGTACAAACAGCACGTCGTTTACTCTCGTCTGACCGCAATCCGCCTATTGATGAGTT
GATAAAAAGTGGAATCTTGCCAATTCTTGTACGTTGTTTAGAACGCGATGAAAATCAGAT
GTTGCAATTCGAAGCAGCATGGGCTTTAACAAATATTGCATCCGGCACATCACAACAGAC
TAATTTAGTAGTTAATGCTGGAGCTGTTCCATTATTTATTCGACTTTTAATGTCACCAGC
AGCAAATGTTTGTGAACAAGCAGTTTGGGCATTGGGAAATATTATTGGTGATGGGCCACA
ATTGCGAGATTATGTTATAAAATTGGGAGTTGTACAGCCATTACTATCGTTTGTGAAGCC
CGATATTCCAATCAGTTTTCTTCGTAATGTAACATGGGTAATTGTCAATTTATGCCGCAA
CAAAGATCCACCACCACCAATTCAAACAATCAATCAAATTCTTCCGGCACTTTGTCATCT
TATTCACAATCCAGATGTCAATATTCTCGTCGATACTGTATGGGCTTTGAGTTATTTAAC
GGATGGTGGAAATGAACAAATTCAATTGGTCATCGATAGTGGTGTTGTTCCGCATTTGAT
TCCATTATTATCACATGTTGAAGTAAAGGTACAAACTGCTGCTCTTCGTGCTGTAGGCAA
TATAGTTACAGGATCAGATGAGCAGACGCAAGTTGTACTCAATTATAATGCATTATCACA
TTTTCCGGCCCTCTTGAGTCATCCCAAAGAGAAAATTCGCAAAGAGGCAGTGTGGTTTTT
GTCTAATATCACAGCTGGTGTACAAACACAAGTTCAAGCGGTCATTGATGCAGGTTTATT
GCCGAAAATTATTGAAAATTTGTCAAAAGGAGAATTTCAGACGCAGAAAGAAGCTGCTTG
GGCAATCAGTAATTTGACGATCAGTGGCAATAAGGAGCAAGTGGCAGAATTAATCAAAGC
AGGAGCAATTCCACCTTTCTGCGAATTACTAAGATGTCATGATACTCAAGTTATCAATGT
AATTTTGGATGGTATCAATAATATGCTAAAAATGGCAGGTCCAAATGCAGAACAAATTGC
TATGCTAATAGAAGAATGCGATGGTTTAACGAAAATCGAGGATCTGCAAAATCATGAGAA
TGTCGAAATTTATAAGCTGGCATATGATATTATTGAGCAGTACTTTAGCGATGAAGTTGG
CGAAGATGATGCTGGTATTAATCCACAAGTAGATGACGGTGGCAACTTCCAATTTAATCC
AAATCAAAATCTTGAATTCAACTTTTAAACAACAACATATATACATACACAGAGTAAATT
AGAAATAACTCATGCGACCCGGTACCGATAATTTTTCACACGAGCTAATACTGCATTCAT
TGAAGAAAGAAATTTTTTATACATACATATTCGTTTCATGAGGAAAAAAAAGTATCTTCT
CTCCTTTCTTTTTATCTGACTTTATATATACACTGATCATTTGAAATAACAAAAAAAGTT
TATATACATATAAAAATATTCGTGAATATAGAAGAGAAATTAGGAGCATGTTCATTTATG
AATTGTCAAAAAGTTTATAATTTTTCTAAATATATCTAAGTTATCATCACTTTAATTTAT
GCTCTTAAATTTCTCACAATTATTTTTTTTTTCCTTAAAAAAAAAGTAACAAAGGTTATT
ATAGACTTTCTTCTCCTTCTTCCGCTCCTTAATAAGCATAGATATGCAGCAGTTATAATA
TTTAATTTTTTAAACTTGCACATATTGAAGCAAAACTTTTAAAAAAGAAAGAAAAAATGT
TGAATGATTCTTTCATGGCTCTCCAATAACTTTTAAAAGAAATGAAATGACGGATTAAAG
AAAGCTCTATTTAGACTTTTCATAGAATTATCTACTATGTACATGAAAGAATGAAACATA
AAAATTTATTAATCCCTTGTGGATAAGTAAGCAAAAAACAGCAGTGTAACGTAACCCTTT
TCTCAGTTTAAAATAAAAAAAAAATCAAATAAAATACTAGAAATAAAAGAACTCATCCTT
TTTTTGACATTTTTAAATATTTCAGGCATGCATGATATGACATGACAATTGATTTCAAAT
AGAAGAAAATCTAACTGAGTATAACGATTTTTCAGAATTCAAATTCGTGCCCCTTGAAAA
AAAAACAACTGACCCCTGAATATTTTTCA
>g12718.t4 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.t4 | Gene3D | G3DSA:1.25.10.10 | - | 1 | 411 | 0.0000000 |
| 10 | g12718.t4 | PANTHER | PTHR23316 | IMPORTIN ALPHA | 6 | 432 | 0.0000000 |
| 11 | g12718.t4 | PANTHER | PTHR23316:SF28 | IMPORTIN SUBUNIT ALPHA | 6 | 432 | 0.0000000 |
| 24 | g12718.t4 | PIRSF | PIRSF005673 | Importin_alpha | 1 | 442 | 0.0000000 |
| 5 | g12718.t4 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 28 | 68 | 0.0000000 |
| 2 | g12718.t4 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 71 | 108 | 0.0000000 |
| 9 | g12718.t4 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 113 | 153 | 0.0000034 |
| 8 | g12718.t4 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 157 | 194 | 0.0000014 |
| 3 | g12718.t4 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 198 | 236 | 0.0000000 |
| 6 | g12718.t4 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 239 | 279 | 0.0000000 |
| 7 | g12718.t4 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 284 | 320 | 0.0000000 |
| 4 | g12718.t4 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 324 | 362 | 0.0000110 |
| 1 | g12718.t4 | Pfam | PF16186 | Atypical Arm repeat | 371 | 422 | 0.0000000 |
| 23 | g12718.t4 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 38 | 81 | 10.2720000 |
| 22 | g12718.t4 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 81 | 108 | 9.4320000 |
| 15 | g12718.t4 | SMART | SM00185 | arm_5 | 27 | 68 | 0.0000000 |
| 18 | g12718.t4 | SMART | SM00185 | arm_5 | 70 | 110 | 0.0000002 |
| 17 | g12718.t4 | SMART | SM00185 | arm_5 | 112 | 153 | 5.5000000 |
| 14 | g12718.t4 | SMART | SM00185 | arm_5 | 156 | 195 | 0.0015000 |
| 16 | g12718.t4 | SMART | SM00185 | arm_5 | 197 | 237 | 0.0000000 |
| 20 | g12718.t4 | SMART | SM00185 | arm_5 | 239 | 279 | 0.0000002 |
| 19 | g12718.t4 | SMART | SM00185 | arm_5 | 280 | 321 | 0.0002400 |
| 13 | g12718.t4 | SMART | SM00185 | arm_5 | 324 | 364 | 0.0005100 |
| 12 | g12718.t4 | 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.
