General information for g11951.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative MICAL-like protein 2.
Parent gene
- The parent gene g11951 is located on chr_1: 19754533..19757061 (+ 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 | g11951 | g11951.t1 | isoform | g11951.t1 | 19754533 | 19757061 |
| chr_1 | g11951 | g11951.t1 | exon | g11951.t1.exon1 | 19754533 | 19754699 |
| chr_1 | g11951 | g11951.t1 | cds | g11951.t1.CDS1 | 19754533 | 19754699 |
| chr_1 | g11951 | g11951.t1 | exon | g11951.t1.exon2 | 19756845 | 19757061 |
| chr_1 | g11951 | g11951.t1 | cds | g11951.t1.CDS2 | 19756845 | 19757061 |
| chr_1 | g11951 | g11951.t1 | TSS | g11951.t1 | NA | NA |
| chr_1 | g11951 | g11951.t1 | TTS | g11951.t1 | NA | NA |
Sequences
>g11951.t1 Gene=g11951 Length=384
ATGAGTGAAAGACGTGGAACAAAGGCTTTAGAGTTGTGGTGTCGTCGGATGGTTGAGGGC
TATAAGAATGTGCAAATCGACAACATGACAACATCGTGGCGTGATGGATTGGCTTTCTGT
GCATTGGTCAGCAAATGTTCCACACTCAAGCAACTGCCAGATTTAATACACTTTGATGAA
CGTAAAAAAGAGGACGTTTATCACAATAATGAGCTTGCATTTCGTGTAGCTGAAGAATAT
TTGGGCATTCCAGCTCTTCTTGATCCACAGGATATGGTAGACTACGAAGTTCCCGACAAG
CTGAGCATTCTCACATATTTATCGCAGTATTATCAGGTCTTTGGAGCACAAGGTGAGTCT
TGCCTCGCGTGCTTACAAGTGTGA
>g11951.t1 Gene=g11951 Length=127
MSERRGTKALELWCRRMVEGYKNVQIDNMTTSWRDGLAFCALVSKCSTLKQLPDLIHFDE
RKKEDVYHNNELAFRVAEEYLGIPALLDPQDMVDYEVPDKLSILTYLSQYYQVFGAQGES
CLACLQV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11951.t1 | CDD | cd00014 | CH | 8 | 114 | 0.000 |
| 6 | g11951.t1 | Gene3D | G3DSA:1.10.418.10 | - | 1 | 121 | 0.000 |
| 2 | g11951.t1 | PANTHER | PTHR23167:SF59 | MICAL-LIKE 1A-RELATED | 5 | 119 | 0.000 |
| 3 | g11951.t1 | PANTHER | PTHR23167 | CALPONIN HOMOLOGY DOMAIN-CONTAINING PROTEIN DDB_G0272472-RELATED | 5 | 119 | 0.000 |
| 1 | g11951.t1 | Pfam | PF00307 | Calponin homology (CH) domain | 8 | 114 | 0.000 |
| 7 | g11951.t1 | ProSiteProfiles | PS50021 | Calponin homology (CH) domain profile. | 4 | 115 | 19.013 |
| 5 | g11951.t1 | SMART | SM00033 | ch_5 | 6 | 110 | 0.000 |
| 4 | g11951.t1 | SUPERFAMILY | SSF47576 | Calponin-homology domain, CH-domain | 7 | 114 | 0.000 |
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 transcript has been annotated with K21068 (MICAL-like protein 2)
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.
