General information for g11673.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Importin-9.
Parent gene
- The parent gene g11673 is located on chr_1: 17738937..17742226 (- 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 | g11673 | g11673.t3 | isoform | g11673.t3 | 17737561 | 17738534 |
| chr_1 | g11673 | g11673.t3 | exon | g11673.t3.exon1 | 17737561 | 17737748 |
| chr_1 | g11673 | g11673.t3 | cds | g11673.t3.CDS1 | 17737561 | 17737748 |
| chr_1 | g11673 | g11673.t3 | exon | g11673.t3.exon2 | 17737814 | 17738245 |
| chr_1 | g11673 | g11673.t3 | cds | g11673.t3.CDS2 | 17737814 | 17738245 |
| chr_1 | g11673 | g11673.t3 | exon | g11673.t3.exon3 | 17738312 | 17738534 |
| chr_1 | g11673 | g11673.t3 | cds | g11673.t3.CDS3 | 17738312 | 17738420 |
| chr_1 | g11673 | g11673.t3 | TSS | g11673.t3 | NA | NA |
| chr_1 | g11673 | g11673.t3 | TTS | g11673.t3 | NA | NA |
Sequences
>g11673.t3 Gene=g11673 Length=843
TCGACTGAATCAAGTGCAACATTTGTTGGTCGTCTTGTTATTACACTTATCACCAAAGCT
GGAAATTTATTAGGAGATAAGATTGATTTGCTATTGAAAGCTGCTTTAAGTAAAATGCAA
CTCGTTGTTTCGCTTCATGTTAATATGTCTCTTATAATGATTTTTGCACATTTATTTCTT
ATTCAAATTGATGCGGTTATGAATTTTCTTAGTTGCATTCCTGGACCGACAGGCGAGCCT
GCAATCAATTTCGTATTTTCTAATTGGTTAACTCGTCAGCATTCTTTTTATGGAACTTAT
GAGCGAAAAGTAAGCGTTATGGCATTATGCAAAATTTTTTTGCATGGAATAAACACTCAA
GATCAACGTTTAGTGAATGTTATGGTGAAAGATTTAGTTGAATTACCAAATGCAGCACCA
GTAACAACTAATGTTCGTACACGATCACAAGCAGCACAAACACAAGTTGTAAATGTTCCA
ATAATGGTCAAAATTTTTAAATTACTTATTAATGAATTAGTTAATTTGAGAGAAATTAAA
AGCGCACTTAATAACACCATTGATAGCGAAGAGGACGATGACACTGAAAATAGCTTAAAT
ACTGGATTAGAAATTGGTGAAAAAAATTTCAATGCATTTATGCTTTATGATGATGATGAA
ACTACCGAGGATGATCAAATGCTGCAAGATTTGATGCAAGATCCTATTTTTCAAGAAGAT
ACAGAAGTTTCGCTCACTAAATTTCTAACAGATTTTAGTCGAAGTGAAAATTATCCAGTA
TTTGTGGAACAATTGACTCCTACAGAAAAGAAGCTCTTACAAAGTTTAAACATCACAACT
TAA
>g11673.t3 Gene=g11673 Length=242
MQLVVSLHVNMSLIMIFAHLFLIQIDAVMNFLSCIPGPTGEPAINFVFSNWLTRQHSFYG
TYERKVSVMALCKIFLHGINTQDQRLVNVMVKDLVELPNAAPVTTNVRTRSQAAQTQVVN
VPIMVKIFKLLINELVNLREIKSALNNTIDSEEDDDTENSLNTGLEIGEKNFNAFMLYDD
DETTEDDQMLQDLMQDPIFQEDTEVSLTKFLTDFSRSENYPVFVEQLTPTEKKLLQSLNI
TT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11673.t3 | Coils | Coil | Coil | 135 | 155 | - |
| 1 | g11673.t3 | PANTHER | PTHR10997 | IMPORTIN-7, 8, 11 | 4 | 237 | 1.0E-17 |
| 2 | g11673.t3 | PANTHER | PTHR10997:SF9 | IMPORTIN-9 | 4 | 237 | 1.0E-17 |
| 6 | g11673.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 8 | g11673.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 32 | - |
| 7 | g11673.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 33 | 242 | - |
| 4 | g11673.t3 | SUPERFAMILY | SSF48371 | ARM repeat | 9 | 238 | 4.6E-14 |
| 3 | g11673.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
