General information for g11466.t15
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tropomyosin.
Parent gene
- The parent gene g11466 is located on chr_1: 16405874..16407076 (- 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 | g11466 | g11466.t15 | isoform | g11466.t15 | 16397067 | 16403493 |
| chr_1 | g11466 | g11466.t15 | exon | g11466.t15.exon1 | 16397067 | 16397553 |
| chr_1 | g11466 | g11466.t15 | TTS | g11466.t15 | 16397069 | 16397069 |
| chr_1 | g11466 | g11466.t15 | cds | g11466.t15.CDS1 | 16397468 | 16397553 |
| chr_1 | g11466 | g11466.t15 | exon | g11466.t15.exon2 | 16399504 | 16399573 |
| chr_1 | g11466 | g11466.t15 | cds | g11466.t15.CDS2 | 16399504 | 16399573 |
| chr_1 | g11466 | g11466.t15 | exon | g11466.t15.exon3 | 16400629 | 16400691 |
| chr_1 | g11466 | g11466.t15 | cds | g11466.t15.CDS3 | 16400629 | 16400691 |
| chr_1 | g11466 | g11466.t15 | exon | g11466.t15.exon4 | 16400819 | 16400894 |
| chr_1 | g11466 | g11466.t15 | cds | g11466.t15.CDS4 | 16400819 | 16400894 |
| chr_1 | g11466 | g11466.t15 | exon | g11466.t15.exon5 | 16401901 | 16401971 |
| chr_1 | g11466 | g11466.t15 | cds | g11466.t15.CDS5 | 16401901 | 16401971 |
| chr_1 | g11466 | g11466.t15 | exon | g11466.t15.exon6 | 16402845 | 16402962 |
| chr_1 | g11466 | g11466.t15 | cds | g11466.t15.CDS6 | 16402845 | 16402916 |
| chr_1 | g11466 | g11466.t15 | exon | g11466.t15.exon7 | 16403395 | 16403493 |
| chr_1 | g11466 | g11466.t15 | TSS | g11466.t15 | NA | NA |
Sequences
>g11466.t15 Gene=g11466 Length=984
TCAACTTTTGGAAGAAGACCTCGAACGTTCTGAAGAGCGTTTGGCATCTGCTACCGCAAA
GTTGTCAGAAGCATCAGCTGCTGCTGATGAATCTGAACGTGCCCGTAAAGTTCTTGAAAA
CCGTTCACTTGCCGATGAAGAGCGTATGGATGCTCTTGAAAATCAATTGAAGGAAGCTCG
CTTCCTCGCTGAAGAAGCTGACAAGAAATACGATGAGGTTGCACGTAAATTAGCTATGGT
TGAGGCTGATCTTGAACGTGCAGAAGAGCGTGCAGAAGCTGGTGAAGCCAAAATTGTTGA
ACTTGAAGAAGAACTTCGCGTCGTCGGTAACAACTTGAAGTCATTGGAAGTGTCAGAAGA
GAAGGCAAATCAACGTGAAGAAGAATATAAGAATCAAATTAAGACTCTTACCACCCGCCT
TAAGGAGGCTGAAGCCAGAGCCGAATTTGCTGAACGTTCAGTTCAGAAATTGCAGAAAGA
AGTCGACAGACTTGAAGATGAGCTTGTTTCCGAAAAGGAGAAATACAGAGAAATTGGAGA
CGATCTCGATACCGCTTTTGTGGAACTCATCCTTAAGGAATAAAGGATTTTCGGCCTACA
AAAACATCAAAGCTTACAATGAAATGAACGTTTTACATAAATTTGAAAAACTCTTACTCT
TCAAAATCTTTTTTCTAATTTATTAATTTTCCTTCAGTTAACGCGCATCGATATACATAT
ATTGTGGATAAGATCAAAGATAGAATTAGGAAAAATTTATTCATATTAAGCATGTAAAGT
TTATCATTTAAATATTACAACCAAGATCATAAGAGATATAGAGATAAATGTAAAACTGCA
AATAACATCAATCTGAAATCTCTCACTCTTGATCGAAATTGGGGTTTAGGAATAAAGTTA
AAACGCCAACATCAGCGAACAAAATTTTTGATATATTTTTTAATTTCAAAATGCAAAAAT
AAAAAGTTTCTTTTTAGAATGTTT
>g11466.t15 Gene=g11466 Length=145
MDALENQLKEARFLAEEADKKYDEVARKLAMVEADLERAEERAEAGEAKIVELEEELRVV
GNNLKSLEVSEEKANQREEEYKNQIKTLTTRLKEAEARAEFAERSVQKLQKEVDRLEDEL
VSEKEKYREIGDDLDTAFVELILKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g11466.t15 | Coils | Coil | Coil | 1 | 133 | - |
| 9 | g11466.t15 | Gene3D | G3DSA:1.20.5.340 | - | 19 | 119 | 1.7E-23 |
| 2 | g11466.t15 | PANTHER | PTHR19269:SF45 | TROPOMYOSIN-1, ISOFORMS 33/34 | 1 | 142 | 4.1E-71 |
| 3 | g11466.t15 | PANTHER | PTHR19269 | TROPOMYOSIN | 1 | 142 | 4.1E-71 |
| 6 | g11466.t15 | PRINTS | PR00194 | Tropomyosin signature | 5 | 33 | 1.4E-38 |
| 5 | g11466.t15 | PRINTS | PR00194 | Tropomyosin signature | 35 | 58 | 1.4E-38 |
| 4 | g11466.t15 | PRINTS | PR00194 | Tropomyosin signature | 91 | 116 | 1.4E-38 |
| 1 | g11466.t15 | Pfam | PF00261 | Tropomyosin | 1 | 142 | 8.0E-60 |
| 8 | g11466.t15 | ProSitePatterns | PS00326 | Tropomyosins signature. | 92 | 100 | - |
| 7 | g11466.t15 | SUPERFAMILY | SSF57997 | Tropomyosin | 1 | 141 | 7.85E-48 |
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.
