General information for g5619.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Importin subunit beta.
Parent gene
- The parent gene g5619 is located on chr_2: 10655563..10657094 (+ 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 | g5619 | g5619.t1 | TSS | g5619.t1 | 10652337 | 10652337 |
| chr_2 | g5619 | g5619.t1 | isoform | g5619.t1 | 10653069 | 10656485 |
| chr_2 | g5619 | g5619.t1 | exon | g5619.t1.exon1 | 10653069 | 10653114 |
| chr_2 | g5619 | g5619.t1 | cds | g5619.t1.CDS1 | 10653069 | 10653114 |
| chr_2 | g5619 | g5619.t1 | exon | g5619.t1.exon2 | 10653654 | 10653895 |
| chr_2 | g5619 | g5619.t1 | cds | g5619.t1.CDS2 | 10653654 | 10653895 |
| chr_2 | g5619 | g5619.t1 | exon | g5619.t1.exon3 | 10653959 | 10656321 |
| chr_2 | g5619 | g5619.t1 | cds | g5619.t1.CDS3 | 10653959 | 10656321 |
| chr_2 | g5619 | g5619.t1 | exon | g5619.t1.exon4 | 10656410 | 10656485 |
| chr_2 | g5619 | g5619.t1 | cds | g5619.t1.CDS4 | 10656410 | 10656485 |
| chr_2 | g5619 | g5619.t1 | TTS | g5619.t1 | 10657086 | 10657086 |
Sequences
>g5619.t1 Gene=g5619 Length=2727
ATGACTATGGAACTAATTAATATATTGGAAAAAACTGTTTCATCAGATAAAAATGAGCTT
GAAGCAGCACAACAATTTTTGGAGCATGCCGCTTCTAACAATCATCCTGACTTTCTTAAA
GCACTTTCGGACGTTCTATGTCATCCTGGAAATTCGCCTGTATCAAGAATGGCGGCTGGT
TTACAATTAAAAAATCAATTGACTAGCAAAGATGAATCTGTGAAGCAAAAATTTCAATCA
AAATGGCTACAGTTACCAGAAGAAATCAGAAGTTATGTAAAGAAAAATATTTTGAGTGCA
CTTGGTACCGAAAGTTTAAGACCATCTTCAGCTGCTCAATGTGTGGCTTATGTCGCAGTT
ACAGAACTTCCTCATGGACAATGGCCAGATCTCATACAAATGCTTGTTGGTAATGTCATC
AATGAGCGATCTACAGAAATGGAACGTGAAGCAACATTGGAAACAATTGGCTACATTTGT
CAAGATATCAATTCTGATATTTTGGAACCACAATCAAATGCAATTCTCACCGCTATTATT
CATGGAATGCGAAAAAATGAATCAAGTAATCACGTTAGATTGGCAGCAACTAATGCTCTT
TTAAACTCGCTAGAATTTACCAAAGCCAATTTTGAAAAGGAGTCTGAGAGAAATTTTATC
ATGGAAGTCGTATGTGAAGCAACACAGAGTGTAGACATTCAAATAAGCGTTGCTGCTTTG
CAGTGTTTAGTGAAAATTATGACACTTTATTATCAATTTATGGAACCTTATATGGCTCAA
GCACTTTTCCCAATTACACTAGAAGCAATGAAATCTGAAAACGATCAAGTTGCACTTCAA
GGTATTGAATTTTGGTCTAATGTATGCGATGAAGAAATTGATCTTGCCATTGAATCACAA
GAAGCGAAAAATGCAGGACAAACACCAGAACATGTGTCTAGACATTATGCTCGTGGTGCT
CTGCAATATCTTGCACCAGTATTGATGCAGAAATTAACCAATCAAGAAGAGAACGATGAT
GACGACGATTGGAATCCATCAAAATCTGCAAGTGTTTGTCTCATGTTGTTGGCGACCTGC
TGCGAAGATGATATCGTTCCACATGTTCTTCCATTCATAACAGAAAATATCAAAAATTCA
AATTGGCGCTATAGAGATGCTGCCTTAATGGTTTTCAGTTCAATTTTAGGCGGTTTAGAA
TCACAAACAATTAAGCCACTTGTTGAGCAAGCAATGCCAACATTAATTGAATTGATGTAT
GATTCAAGTGTAATTGTTCGCGACACAAATGCATGGACCATTGGAAGAATTTGTGAAGTA
ATTCCTCAGGTCGCCATTGACCCACAATTTTTAGAACAATTATTGCAAGCTCTTCTTAGT
CAGTTGAAGGAGGAACCACGTGTTGCTTCAAATGTTTGTTGGGCTTTTACCGGTCTTTCA
CAAGCTGCATATGATGCTGCACTTATGGACGAAGATGAACCAGAAACGTATTGTCTTTCA
AAATACTTTGATTTCATTGTTCAAAGTTTACTCGAAACAACTGATCGTGCAGATGGTGGG
CAATCAAATTTGAGAGCTGCAGCATATGAAGCTTTAATGGAAATGATTAAGAATTCACCT
AATGATTGCTATAAAACAGTTCAAAGAACAACAATGGTAATTTTGGAGAGATTAAATCAA
ATTTTAAATGTTGACTCGATGATTGCTCCAAATGATCGTCAGAAAATTCAAGATATTCAA
TCATCGTTGTGCGCAACATTACAATCTGTATTGAGAAAAGTTAAGCCAGAAGATGCACAA
ATCGTATCCGACGCCATCATGAGTGCTTTGCTCATGATGTTCAATTCGAGCTCGGGTAAA
GCTGGCGGTGTTCAAGAAGACGCTTTGATGGCTGTATCAACTCTGTGCGATTTATTAAAC
GAAGGTTTTATCAAATACATGGAAGCATTTAAACCATTCTTGTATATGGCACTAAGAAAT
CATCAAGATTATCAAGTCTGCTCTGTTGCCATTGGTTTAGTTGGTGACATTGCTCGTGCA
CTCAAACTTGCTGTCATTCCATATTGCGATGAAATTATGAGTATGCTCATGCAAAATTTA
AGCAATCCCGAAATACATCGTGATGTTAAACCACAAGTTTTAAGTGTCTTTGGTGACATT
GCTCTCAGCATAAGTGGAGAATTTAAGAAATATCTCGAGCCAGTTTTAGATGTTCTTACT
CAAGTGATGGGTCTTCAAGTTGAACAAAAAGATTTTGAAATGCGTGACTATTTCTGTGTT
TTACGTGAAAGTGTTTTAGAAGCTTACACAGGAATCGTTCAAGGATTAAAGGGGCCAGAT
CCAAATAAAGTTCATCCAGATATTATGCTTCTCCAAAATCACGTTCCACTTATCGTCAAA
TATATCGTTCAAACAGCTCAAGATCCTGATCTTTCTGAAAGTACAATGACTAGCTGTGCT
GGTTTAATAGGCGATTTATGTGCTGCTTTTGGTGCACCACTTTTACCATATTTACTCGAA
GACAATATCGTTATGCCAATGCTTACGGAAGGAAAGAAATCACAAGCATCACGTACAAAG
TCTACTTGCAGTTGGGCGCTTCGTGCTATCAAAACATTAAAACAATCATCTCAACTCGCG
CCTGCCGTTAATAATGTTGCACAACCACCTACAGCTAACAATAACAACAACATTCAATTT
ACCAATAACTTTCCAAATGCTGTTTAG
>g5619.t1 Gene=g5619 Length=908
MTMELINILEKTVSSDKNELEAAQQFLEHAASNNHPDFLKALSDVLCHPGNSPVSRMAAG
LQLKNQLTSKDESVKQKFQSKWLQLPEEIRSYVKKNILSALGTESLRPSSAAQCVAYVAV
TELPHGQWPDLIQMLVGNVINERSTEMEREATLETIGYICQDINSDILEPQSNAILTAII
HGMRKNESSNHVRLAATNALLNSLEFTKANFEKESERNFIMEVVCEATQSVDIQISVAAL
QCLVKIMTLYYQFMEPYMAQALFPITLEAMKSENDQVALQGIEFWSNVCDEEIDLAIESQ
EAKNAGQTPEHVSRHYARGALQYLAPVLMQKLTNQEENDDDDDWNPSKSASVCLMLLATC
CEDDIVPHVLPFITENIKNSNWRYRDAALMVFSSILGGLESQTIKPLVEQAMPTLIELMY
DSSVIVRDTNAWTIGRICEVIPQVAIDPQFLEQLLQALLSQLKEEPRVASNVCWAFTGLS
QAAYDAALMDEDEPETYCLSKYFDFIVQSLLETTDRADGGQSNLRAAAYEALMEMIKNSP
NDCYKTVQRTTMVILERLNQILNVDSMIAPNDRQKIQDIQSSLCATLQSVLRKVKPEDAQ
IVSDAIMSALLMMFNSSSGKAGGVQEDALMAVSTLCDLLNEGFIKYMEAFKPFLYMALRN
HQDYQVCSVAIGLVGDIARALKLAVIPYCDEIMSMLMQNLSNPEIHRDVKPQVLSVFGDI
ALSISGEFKKYLEPVLDVLTQVMGLQVEQKDFEMRDYFCVLRESVLEAYTGIVQGLKGPD
PNKVHPDIMLLQNHVPLIVKYIVQTAQDPDLSESTMTSCAGLIGDLCAAFGAPLLPYLLE
DNIVMPMLTEGKKSQASRTKSTCSWALRAIKTLKQSSQLAPAVNNVAQPPTANNNNNIQF
TNNFPNAV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g5619.t1 | Gene3D | G3DSA:1.25.10.10 | - | 1 | 875 | 0.0000e+00 |
| 3 | g5619.t1 | PANTHER | PTHR10527 | IMPORTIN BETA | 5 | 872 | 0.0000e+00 |
| 4 | g5619.t1 | PANTHER | PTHR10527:SF1 | IMPORTIN SUBUNIT BETA-1 | 5 | 872 | 0.0000e+00 |
| 2 | g5619.t1 | Pfam | PF03810 | Importin-beta N-terminal domain | 23 | 103 | 0.0000e+00 |
| 1 | g5619.t1 | Pfam | PF13513 | HEAT-like repeat | 382 | 437 | 2.0000e-07 |
| 12 | g5619.t1 | ProSiteProfiles | PS50166 | Importin-beta N-terminal domain profile. | 23 | 103 | 1.9889e+01 |
| 13 | g5619.t1 | ProSiteProfiles | PS50077 | HEAT repeat profile. | 411 | 449 | 8.9160e+00 |
| 6 | g5619.t1 | SMART | SM00913 | IBN_N_2 | 23 | 103 | 1.0000e-07 |
| 10 | g5619.t1 | SMART | SM00185 | arm_5 | 400 | 439 | 3.9000e+00 |
| 9 | g5619.t1 | SMART | SM00185 | arm_5 | 442 | 481 | 4.3000e+01 |
| 8 | g5619.t1 | SMART | SM00185 | arm_5 | 595 | 637 | 1.4000e+02 |
| 7 | g5619.t1 | SMART | SM00185 | arm_5 | 781 | 828 | 5.0000e+02 |
| 5 | g5619.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 3 | 871 | 0.0000e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5619/g5619.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5619.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0031267 | small GTPase binding | MF |
| GO:0006886 | intracellular protein transport | BP |
| GO:0005515 | protein binding | MF |
| GO:0006606 | protein import into nucleus | BP |
KEGG
Orthology
- This transcript has been annotated with K14293 (importin subunit beta-1)
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.
