General information for g3124.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3124 is located on chr_3: 23073698..23075860 (- 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 | g3124 | g3124.t3 | isoform | g3124.t3 | 23073698 | 23074659 |
| chr_3 | g3124 | g3124.t3 | exon | g3124.t3.exon1 | 23073698 | 23074318 |
| chr_3 | g3124 | g3124.t3 | cds | g3124.t3.CDS1 | 23073700 | 23074296 |
| chr_3 | g3124 | g3124.t3 | exon | g3124.t3.exon2 | 23074646 | 23074659 |
| chr_3 | g3124 | g3124.t3 | TSS | g3124.t3 | NA | NA |
| chr_3 | g3124 | g3124.t3 | TTS | g3124.t3 | NA | NA |
Sequences
>g3124.t3 Gene=g3124 Length=635
GTGAGAATTTCAGAATTGGATGAAAATCCGGATTTAATGGCATTGCATGTCGGTGATAGA
ATCATTGATATAAATGGACATTCAGTTGATGGAAAAAATTCAATTAATGATCTTCATAAA
ATTATCGATGACACTGATCGAGTACTTCAACTTACAATAGAACACGAGCCAAATACTATA
ACAAGACGAAATCCAATTTCAGGAGAATTAGAATTTCTAACGACTCAAACAGTTAGTAGA
AATGCCTCATCGTCATCAATATGTCCTACAAATGATTCGACTTTGATGTTACCGCCAGTT
CCTAAATTGGATAAAGCTCGAATTGCGACTAGAATGGACGAGGGATATATGAGCGGTACA
CCAAAGAAATTTAATAAGCTTACACGTAATCAAAAAGGCAACCAGAAAAGAACAACGAAA
TTCAATTGTGAACAGTCAACAAATTCACTAAGAGATGGTAAAGAAAGAAGTAGTAGCATG
AGTAAATTGATGCTAGGTCATAATGTAAATACAACCGATGGCCATAATCAAATGTTTGAT
CTGTCACGAACAAAAAGTTTTCGTGTTGAGCCGCAAAATGGTGTTCATAATCATAGAATT
TTCCGAGCATCAGATTTAGTCATTGGTGAAATGCT
>g3124.t3 Gene=g3124 Length=199
MALHVGDRIIDINGHSVDGKNSINDLHKIIDDTDRVLQLTIEHEPNTITRRNPISGELEF
LTTQTVSRNASSSSICPTNDSTLMLPPVPKLDKARIATRMDEGYMSGTPKKFNKLTRNQK
GNQKRTTKFNCEQSTNSLRDGKERSSSMSKLMLGHNVNTTDGHNQMFDLSRTKSFRVEPQ
NGVHNHRIFRASDLVIGEM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g3124.t3 | CDD | cd00992 | PDZ_signaling | 3 | 42 | 6.37215E-6 |
| 7 | g3124.t3 | Coils | Coil | Coil | 196 | 199 | - |
| 6 | g3124.t3 | Gene3D | G3DSA:2.30.42.10 | - | 1 | 52 | 3.1E-10 |
| 4 | g3124.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 118 | 147 | - |
| 5 | g3124.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 118 | 136 | - |
| 1 | g3124.t3 | PANTHER | PTHR46485:SF4 | LIM DOMAIN KINASE 1 | 3 | 198 | 2.7E-17 |
| 2 | g3124.t3 | PANTHER | PTHR46485 | LIM DOMAIN KINASE 1 | 3 | 198 | 2.7E-17 |
| 8 | g3124.t3 | ProSiteProfiles | PS50106 | PDZ domain profile. | 1 | 45 | 8.607 |
| 3 | g3124.t3 | SUPERFAMILY | SSF50156 | PDZ domain-like | 3 | 54 | 1.58E-6 |
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.
