General information for g12014.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Importin subunit alpha.
Parent gene
- The parent gene g12014 is located on chr_1: 20393147..20394827 (- 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 | g12014 | g12014.t3 | TTS | g12014.t3 | 20392735 | 20392735 |
| chr_1 | g12014 | g12014.t3 | isoform | g12014.t3 | 20392823 | 20394827 |
| chr_1 | g12014 | g12014.t3 | exon | g12014.t3.exon1 | 20392823 | 20394008 |
| chr_1 | g12014 | g12014.t3 | cds | g12014.t3.CDS1 | 20392823 | 20394008 |
| chr_1 | g12014 | g12014.t3 | exon | g12014.t3.exon2 | 20394088 | 20394407 |
| chr_1 | g12014 | g12014.t3 | cds | g12014.t3.CDS2 | 20394088 | 20394407 |
| chr_1 | g12014 | g12014.t3 | exon | g12014.t3.exon3 | 20394477 | 20394556 |
| chr_1 | g12014 | g12014.t3 | cds | g12014.t3.CDS3 | 20394477 | 20394545 |
| chr_1 | g12014 | g12014.t3 | exon | g12014.t3.exon4 | 20394676 | 20394827 |
| chr_1 | g12014 | g12014.t3 | TSS | g12014.t3 | 20394835 | 20394835 |
Sequences
>g12014.t3 Gene=g12014 Length=1738
ATACCAACAAAACATCAACGTATTTTTTAAATTATCTCTCTGTAATTTTTATTAAATTAA
TTGTGTAATAAGTCAAATCTAAGTGTGCCTTGCCTTTTAAATAATAACTAAACCCACCTC
TTAACGTCTGATATTGAAGATTTGATCAATCGATATTTCAAAGATGTCTGAAAATACAGC
TCAACCATCAAGCCGATTGGCTGCATACAAGAATAATGCCAAAAATTCGGATGAAATGCG
ACAACGTCGTCAACAGATATCTGTTGAATTGCGTAAGAACAAGAAAGAAGATCAGCTGTT
AAAGCGTCGTAATATTGAACCAGCAGAACCTACTTCGCCACTTCAAGAATCCAATGCTCA
GTCACCATCTGCATCAGCTATTTCAGTTGATGATATTATGATGGCAATCAACAGTACCAA
TCCAACTTTGCAGTTTCAAGCTGTTCAAAGTGTTCGTAAAATGCTCAGCCGTGAGAAGAA
TCCACCAATTGATAAAATTATCAATATGGGTCTTGTGCCTATTTTAATTAATTTCCTTGA
CAATTTTGAAAATTTCTCAATCCAATTTGAAGCTGCATGGGCGCTTACAAATATTGCTTC
TGGTACTAGTGACCAAACAAAAGCAGTAATCAATCAAGGTGCAGTTCCTAAATTTATTGC
ATTACTGAAATCCAAACATCCAAATGTAGCTGAACAGGCAGTTTGGGCTTTAGGAAATAT
TGCTGGTGATGGTTCTGACGCTCGTGATATTGTACTTAAAGATGGAACTGTTGAAAGTCT
ATTGGAACTACTGAATAATGAAAACATTGAAATTTCATTTCTTCGAAATATTGTTTGGTT
AATGTCTAATTTATGCCGTAATAAGAATCCAGCACCGCCATTCAGCAAGATTAAAAAATT
ACTTCCGGCACTTTCAGAATTACTCAATCATGATGATAAACTTATTCTTTCTGATGTATG
TTGGGCACTTTCATATGTCACTGATGACACAACCGAAAAAGTGCAGTCAGTTGTTAATTC
AGGATGTGTTCCTCGTTTAATTGCACTTCTTGACACAGATGATGCAACAATTATTACACC
TGCTTTGCGATCGATTGGAAATATTGTAACTGGTGATGATGTAACAACTGATGTTGTACT
TAATGCAAAAGTTTTGCCCGCATTGGCTAATTTACTCACCAATAAAAAACCTAACATTGT
GAAAGAAGCTGCTTGGACATTAAGTAACATAACAGCTGGAACACCTCATCAGATTCAAAT
GGTCTTGGATAGTGACATTTTCGCTCCACTCGTTAATGTTTTGAGTCATGGAGATTTTAG
AGCTCAACGTGAAGCAGCTTGGGCTGTTACTAATTTAACTAGCGGTGGAACAAATGATCA
AATAATTCAAATGGTTAACAAATATCCTCTTATGAAACCTTATTGTGATCTATTATCTAC
AAGCGATGCACGCATTATTAGTGTCATTCTCAATGGACTTACTATTCTATTCCGTGTTGC
AGAAGATTTCAATGGATTAGAAAACTTTTGCACAACACTCGAAGAAATTGGCGCTCTTGA
CAAATTAGAAGCATTGCAAAATCATGAAAATAATGATATCTATGAAAAATCTTTCGCAAT
TATCAACAAATACTTTCAAGATGATAATGAAGAAGTTGCTGATTTGGTTCCACAAACAGT
CAATGGTGCATTGGAATTCAATGCTGAAGGAGGAAATCAAAATCAATTCAATTTTTAA
>g12014.t3 Gene=g12014 Length=524
MSENTAQPSSRLAAYKNNAKNSDEMRQRRQQISVELRKNKKEDQLLKRRNIEPAEPTSPL
QESNAQSPSASAISVDDIMMAINSTNPTLQFQAVQSVRKMLSREKNPPIDKIINMGLVPI
LINFLDNFENFSIQFEAAWALTNIASGTSDQTKAVINQGAVPKFIALLKSKHPNVAEQAV
WALGNIAGDGSDARDIVLKDGTVESLLELLNNENIEISFLRNIVWLMSNLCRNKNPAPPF
SKIKKLLPALSELLNHDDKLILSDVCWALSYVTDDTTEKVQSVVNSGCVPRLIALLDTDD
ATIITPALRSIGNIVTGDDVTTDVVLNAKVLPALANLLTNKKPNIVKEAAWTLSNITAGT
PHQIQMVLDSDIFAPLVNVLSHGDFRAQREAAWAVTNLTSGGTNDQIIQMVNKYPLMKPY
CDLLSTSDARIISVILNGLTILFRVAEDFNGLENFCTTLEEIGALDKLEALQNHENNDIY
EKSFAIINKYFQDDNEEVADLVPQTVNGALEFNAEGGNQNQFNF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g12014.t3 | Gene3D | G3DSA:1.20.5.690 | Single helix bin | 9 | 52 | 1.9E-17 |
| 11 | g12014.t3 | Gene3D | G3DSA:1.25.10.10 | - | 56 | 492 | 2.7E-173 |
| 23 | g12014.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 69 | - |
| 24 | g12014.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 17 | - |
| 22 | g12014.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 21 | 50 | - |
| 8 | g12014.t3 | PANTHER | PTHR23316 | IMPORTIN ALPHA | 9 | 511 | 1.2E-201 |
| 9 | g12014.t3 | PANTHER | PTHR23316:SF65 | IMPORTIN SUBUNIT ALPHA | 9 | 511 | 1.2E-201 |
| 13 | g12014.t3 | PIRSF | PIRSF005673 | Importin_alpha | 1 | 524 | 7.4E-198 |
| 1 | g12014.t3 | Pfam | PF01749 | Importin beta binding domain | 11 | 95 | 2.4E-22 |
| 6 | g12014.t3 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 106 | 146 | 1.3E-10 |
| 7 | g12014.t3 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 149 | 187 | 5.8E-13 |
| 4 | g12014.t3 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 278 | 315 | 1.9E-7 |
| 5 | g12014.t3 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 321 | 358 | 4.0E-10 |
| 3 | g12014.t3 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 360 | 400 | 1.0E-9 |
| 2 | g12014.t3 | Pfam | PF16186 | Atypical Arm repeat | 453 | 504 | 9.0E-20 |
| 25 | g12014.t3 | ProSiteProfiles | PS51214 | IBB domain profile. | 1 | 58 | 15.707 |
| 26 | g12014.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 116 | 159 | 10.027 |
| 28 | g12014.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 159 | 201 | 11.952 |
| 27 | g12014.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 201 | 230 | 9.572 |
| 29 | g12014.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 329 | 357 | 10.202 |
| 16 | g12014.t3 | SMART | SM00185 | arm_5 | 105 | 146 | 4.3E-8 |
| 19 | g12014.t3 | SMART | SM00185 | arm_5 | 148 | 188 | 1.5E-10 |
| 20 | g12014.t3 | SMART | SM00185 | arm_5 | 190 | 232 | 1.3 |
| 18 | g12014.t3 | SMART | SM00185 | arm_5 | 235 | 274 | 92.0 |
| 21 | g12014.t3 | SMART | SM00185 | arm_5 | 276 | 316 | 8.9E-4 |
| 17 | g12014.t3 | SMART | SM00185 | arm_5 | 318 | 358 | 5.6E-7 |
| 14 | g12014.t3 | SMART | SM00185 | arm_5 | 360 | 400 | 1.7E-6 |
| 15 | g12014.t3 | SMART | SM00185 | arm_5 | 403 | 444 | 46.0 |
| 10 | g12014.t3 | SUPERFAMILY | SSF48371 | ARM repeat | 15 | 496 | 1.65E-117 |
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 transcript has been annotated with K15043 (importin subunit alpha-1/8)
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.
