General information for g938.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein roadkill.
Parent gene
- The parent gene g938 is located on chr_3: 6978751..6980792 (- 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_3 | g938 | g938.t4 | TTS | g938.t4 | 6978505 | 6978505 |
| chr_3 | g938 | g938.t4 | isoform | g938.t4 | 6978587 | 6979898 |
| chr_3 | g938 | g938.t4 | exon | g938.t4.exon1 | 6978587 | 6979217 |
| chr_3 | g938 | g938.t4 | cds | g938.t4.CDS1 | 6978747 | 6979217 |
| chr_3 | g938 | g938.t4 | exon | g938.t4.exon2 | 6979276 | 6979313 |
| chr_3 | g938 | g938.t4 | cds | g938.t4.CDS2 | 6979276 | 6979313 |
| chr_3 | g938 | g938.t4 | exon | g938.t4.exon3 | 6979382 | 6979584 |
| chr_3 | g938 | g938.t4 | cds | g938.t4.CDS3 | 6979382 | 6979584 |
| chr_3 | g938 | g938.t4 | exon | g938.t4.exon4 | 6979643 | 6979731 |
| chr_3 | g938 | g938.t4 | cds | g938.t4.CDS4 | 6979643 | 6979731 |
| chr_3 | g938 | g938.t4 | exon | g938.t4.exon5 | 6979790 | 6979898 |
| chr_3 | g938 | g938.t4 | cds | g938.t4.CDS5 | 6979790 | 6979792 |
| chr_3 | g938 | g938.t4 | TSS | g938.t4 | NA | NA |
Sequences
>g938.t4 Gene=g938 Length=1070
GGACAAAAAAATATACGTTAGAATTGAAAATCTCTTTTTTTAAACGTGCCTTAAAGTTCT
CTTAAATTTTAAGTTTTATTGAAAAATATTCTGAAATTAAATAAAAATGGAAAAGAGTTT
TCAATTAAATATAACATCTTTTCAATATAGTAATGGTTCGAAGAACACAAAGATTTTCAC
AAATGTATATGGAAAATGGACTGTTACTATTCTTAGTGTTGGTTATTATCCATCGTTGAT
TGGTATAATATTTTTAGATCCTGTTTTTAAAAAAAAATTGGTCGATTGGAAACAAGTTAA
TATTGAAGTTGATTGCAAAAATTCCAATGGATACAATGAGTCTGTTACAGCTGAGAATCT
TGAGAAAACGACATTTGTCTTCCAAACGAGTTCCAACCAAGGGAGCTATTGTACATTAAG
TTATCAAATCAATATTAAGATTAAGATGCCAGAAATTTCAATTATTGAAGACAAACGATT
TGGAACAAAAAATCATTTGAAATCTTTATTTGATTCTGGAAAAGATTCTGATATCACAAT
CAAAGCAGAAGAAAAAGAAATCAAAGTTCATAAGCTTATTTTGAAACGATCGGAAGTTTT
TGCAAAAATGTTGAATGGTACATCAAAAGAGACTCAAAGTAAAATCATAGAAATTAAGGA
TATCAAATATGAAGTGATCGTTGAAATGTGCCGATTTTTGTATTATGATGAAATTCCAAA
AATTGATTCACTTGCTCTTCCTTTATTAATTGCTGCTGATAAATATATGATCAATGATTT
AGCTAACAAATGTGAAAAATTTTTGATGTTAAACATAACTATTGGGAATTTTCATGAAGT
CTTGGTAACTGCTGATCAACTAAATAAAAATAAATTGCGTGAAGCCACAATTGATTACAT
CATTGCGTAAGTAATCAAAAGATTTTTTTTGTATATAACACAGAATATTCTTTATTTTCT
ACAGAAACCGTAAATCGATTTTCCCATCTGTAACATGGAAAACTTTAAAGACAAATCACA
TGCAACTTGCTATGCTTGTCATGGAAAAATTTATGTTAAAAGATGCTTAA
>g938.t4 Gene=g938 Length=267
MEKSFQLNITSFQYSNGSKNTKIFTNVYGKWTVTILSVGYYPSLIGIIFLDPVFKKKLVD
WKQVNIEVDCKNSNGYNESVTAENLEKTTFVFQTSSNQGSYCTLSYQINIKIKMPEISII
EDKRFGTKNHLKSLFDSGKDSDITIKAEEKEIKVHKLILKRSEVFAKMLNGTSKETQSKI
IEIKDIKYEVIVEMCRFLYYDEIPKIDSLALPLLIAADKYMINDLANKCEKFLMLNITIG
NFHEVLVTADQLNKNKLREATIDYIIA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g938.t4 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 110 | 266 | 2.5E-39 |
| 2 | g938.t4 | PANTHER | PTHR24413:SF213 | FI01029P-RELATED | 78 | 265 | 1.8E-31 |
| 3 | g938.t4 | PANTHER | PTHR24413 | SPECKLE-TYPE POZ PROTEIN | 78 | 265 | 1.8E-31 |
| 1 | g938.t4 | Pfam | PF00651 | BTB/POZ domain | 131 | 233 | 7.2E-21 |
| 7 | g938.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 30 | - |
| 8 | g938.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 31 | 50 | - |
| 6 | g938.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 51 | 267 | - |
| 11 | g938.t4 | ProSiteProfiles | PS50097 | BTB domain profile. | 141 | 207 | 13.612 |
| 10 | g938.t4 | SMART | SM00225 | BTB_4 | 141 | 237 | 6.7E-17 |
| 4 | g938.t4 | SUPERFAMILY | SSF54695 | POZ domain | 128 | 234 | 3.4E-22 |
| 9 | g938.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 27 | 49 | - |
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 |
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.
