General information for g8942.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Importin subunit alpha-7.
Parent gene
- The parent gene g8942 is located on chr_2: 34006200..34007466 (- 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_2 | g8942 | g8942.t1 | TTS | g8942.t1 | 34004136 | 34004136 |
| chr_2 | g8942 | g8942.t1 | isoform | g8942.t1 | 34004939 | 34006703 |
| chr_2 | g8942 | g8942.t1 | exon | g8942.t1.exon1 | 34004939 | 34005120 |
| chr_2 | g8942 | g8942.t1 | cds | g8942.t1.CDS1 | 34004939 | 34005120 |
| chr_2 | g8942 | g8942.t1 | exon | g8942.t1.exon2 | 34005181 | 34005683 |
| chr_2 | g8942 | g8942.t1 | cds | g8942.t1.CDS2 | 34005181 | 34005683 |
| chr_2 | g8942 | g8942.t1 | exon | g8942.t1.exon3 | 34005736 | 34006223 |
| chr_2 | g8942 | g8942.t1 | cds | g8942.t1.CDS3 | 34005736 | 34006223 |
| chr_2 | g8942 | g8942.t1 | exon | g8942.t1.exon4 | 34006278 | 34006703 |
| chr_2 | g8942 | g8942.t1 | cds | g8942.t1.CDS4 | 34006278 | 34006703 |
| chr_2 | g8942 | g8942.t1 | TSS | g8942.t1 | 34007075 | 34007075 |
Sequences
>g8942.t1 Gene=g8942 Length=1599
ATGAACAGTTCAAGAAATGCTGCTCGCTATAAAAACCAAGGTCTTGATCAGGCTGAGCTT
AGACGACGACGAGAAGAGGAAGGAATTCAGTTGAGAAAACAAAAACGTGAACAACAATTA
ACAAAACGAAGAAACCTTAATCCACAAATTGATGATCAAGATGATGATGACAATTCTGAA
ATGCTCACTGATCGCCCTATAGAAATGCAAGAAATTCCATCTCAACAGTCAGCAAACACA
GTGATTCGTTTCGAGACGGTCCAAGCATTATATAGTTCGAATGTCGCTGATCAACTTGCT
GCCACACAAAAATTCAGAAAACTTTTGAGCAAAGAACCAAATCCTCCTATTGATGAAGTA
ATAAAAACAGGGATTGTTGGTCGCTTTGTCGAGCTTTTAAATAATCATGAAAATACAACT
CTTCAATTTGAAGCAGCATGGGCTTTAACAAATATTGCATCTGGAACGTCACAGCAAACA
CAAGTTGTTTTAGAAGCAAAGGCCATACCAGTTTTTGTGCAATTATTGGAAACAAGTCAT
AATAATGATGTGCAAGAGCAAGTTGTTTGGGCACTTGGAAATATTGCAGGTGACTCAGCC
ATGTGCCGTGATGAAGTGCTTGATTCAGGAATTTTGGGACCGCTTTTGAAACTTCTTGAA
ACAACAACTCGCCTCAACATGTGTCGTAATGGTGTTTGGACGTTATCAAACTTATGTAGA
GGAAAAAATCCTCCACCAGATTTTCAAAAAGTTTCCAAATGTTTGCCCGTATTGGCACGT
TTTATTTATCATGAGGACAATGAAGTGTTAAGCGATGCCTGTTGGGCATTAAGTTATCTA
AGTGATGGACCAAACAACAAAATTCAAGCAGTTATTGATGCTGGTGTATGTCGTCGTCTA
GTTGAGTTATTAGGTTATAGAGAATGCAATAATGTAATATCAGCTGCTTTACGAGCAGTA
GGTAATATTGTGACAGGTGATGATGCGCAAACACAAGTGATTCTTAATTGCAACGCTCTT
CCTGCATTATATCAACTTTTGAAATCAGAAAAGGACACAATCGTGAAAGAAGCATGTTGG
ACTATTTCAAATATAGCTGCAGGAAATATGCAACAAATTCAGGCAATTATCGATGCAAAT
ATTTTCCCATTGTTAATTAACATATTAGGAACAGCAGAATATAAGACACGAAAAGAAGCG
GCATGGGCTGTAACAAATTCAACAAGTGGTGGAACTGCTGAACAAATAAAATATTTAGTA
TCTGTTGGATGCATTCCACCAATGTGTGAGCTACTTACCGTGATGGATGCAAATATTGTA
CAGGTTGCACTTAATGGTCTCGAAAACATTTTAAAATCGGGAGAACAATGTTATCAGAAA
CCAAATCCATATGCTGTACTCATTGAAGAATGTTATGGTCTCGATAAAATTGAATTTCTT
CAAACTCATGAAAAAACTGAAATATATGAACGAGCATACAGCATTTTGCAAGAATATTAT
GGCAACGATGAAGAAGATCAAATGGTCGCACCATCGACACAAAATAACGAGTTTCAATTT
AGTAATCAACCTATTGGCGATGGAAGTTTTCAATTCTAA
>g8942.t1 Gene=g8942 Length=532
MNSSRNAARYKNQGLDQAELRRRREEEGIQLRKQKREQQLTKRRNLNPQIDDQDDDDNSE
MLTDRPIEMQEIPSQQSANTVIRFETVQALYSSNVADQLAATQKFRKLLSKEPNPPIDEV
IKTGIVGRFVELLNNHENTTLQFEAAWALTNIASGTSQQTQVVLEAKAIPVFVQLLETSH
NNDVQEQVVWALGNIAGDSAMCRDEVLDSGILGPLLKLLETTTRLNMCRNGVWTLSNLCR
GKNPPPDFQKVSKCLPVLARFIYHEDNEVLSDACWALSYLSDGPNNKIQAVIDAGVCRRL
VELLGYRECNNVISAALRAVGNIVTGDDAQTQVILNCNALPALYQLLKSEKDTIVKEACW
TISNIAAGNMQQIQAIIDANIFPLLINILGTAEYKTRKEAAWAVTNSTSGGTAEQIKYLV
SVGCIPPMCELLTVMDANIVQVALNGLENILKSGEQCYQKPNPYAVLIEECYGLDKIEFL
QTHEKTEIYERAYSILQEYYGNDEEDQMVAPSTQNNEFQFSNQPIGDGSFQF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g8942.t1 | Coils | Coil | Coil | 17 | 37 | - |
| 15 | g8942.t1 | Gene3D | G3DSA:1.20.5.690 | Single helix bin | 6 | 46 | 8.0E-15 |
| 14 | g8942.t1 | Gene3D | G3DSA:1.25.10.10 | - | 84 | 508 | 5.4E-194 |
| 27 | g8942.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 58 | - |
| 26 | g8942.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 15 | 51 | - |
| 11 | g8942.t1 | PANTHER | PTHR23316 | IMPORTIN ALPHA | 8 | 522 | 3.9E-232 |
| 12 | g8942.t1 | PANTHER | PTHR23316:SF8 | IMPORTIN SUBUNIT ALPHA-7 | 8 | 522 | 3.9E-232 |
| 17 | g8942.t1 | PIRSF | PIRSF005673 | Importin_alpha | 1 | 532 | 1.2E-214 |
| 1 | g8942.t1 | Pfam | PF01749 | Importin beta binding domain | 8 | 103 | 2.1E-21 |
| 7 | g8942.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 114 | 154 | 8.0E-11 |
| 10 | g8942.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 157 | 196 | 5.8E-11 |
| 6 | g8942.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 201 | 240 | 4.9E-7 |
| 5 | g8942.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 247 | 282 | 5.3E-7 |
| 4 | g8942.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 286 | 324 | 6.0E-5 |
| 3 | g8942.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 327 | 367 | 2.2E-12 |
| 8 | g8942.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 371 | 406 | 6.3E-7 |
| 9 | g8942.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 413 | 450 | 6.2E-6 |
| 2 | g8942.t1 | Pfam | PF16186 | Atypical Arm repeat | 462 | 511 | 7.3E-20 |
| 28 | g8942.t1 | ProSiteProfiles | PS51214 | IBB domain profile. | 1 | 53 | 14.038 |
| 29 | g8942.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 124 | 167 | 9.117 |
| 31 | g8942.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 167 | 196 | 9.292 |
| 30 | g8942.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 338 | 369 | 9.992 |
| 23 | g8942.t1 | SMART | SM00185 | arm_5 | 113 | 154 | 4.5E-7 |
| 24 | g8942.t1 | SMART | SM00185 | arm_5 | 156 | 197 | 6.6E-10 |
| 25 | g8942.t1 | SMART | SM00185 | arm_5 | 199 | 240 | 0.0087 |
| 18 | g8942.t1 | SMART | SM00185 | arm_5 | 243 | 282 | 5.0 |
| 22 | g8942.t1 | SMART | SM00185 | arm_5 | 284 | 325 | 8.8E-5 |
| 19 | g8942.t1 | SMART | SM00185 | arm_5 | 327 | 367 | 8.3E-9 |
| 21 | g8942.t1 | SMART | SM00185 | arm_5 | 369 | 409 | 1.3E-4 |
| 20 | g8942.t1 | SMART | SM00185 | arm_5 | 412 | 452 | 5.8E-5 |
| 13 | g8942.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 2 | 505 | 7.3E-123 |
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 K15042 (importin subunit alpha-6/7)
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.
