General information for g11464.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tropomyosin-1.
Parent gene
- The parent gene g11464 is located on chr_1: 16393544..16395040 (- 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 | g11464 | g11464.t7 | isoform | g11464.t7 | 16389951 | 16394206 |
| chr_1 | g11464 | g11464.t7 | exon | g11464.t7.exon1 | 16389951 | 16390388 |
| chr_1 | g11464 | g11464.t7 | TTS | g11464.t7 | 16389991 | 16389991 |
| chr_1 | g11464 | g11464.t7 | cds | g11464.t7.CDS1 | 16390306 | 16390388 |
| chr_1 | g11464 | g11464.t7 | exon | g11464.t7.exon2 | 16393192 | 16393369 |
| chr_1 | g11464 | g11464.t7 | cds | g11464.t7.CDS2 | 16393192 | 16393369 |
| chr_1 | g11464 | g11464.t7 | exon | g11464.t7.exon3 | 16393544 | 16394206 |
| chr_1 | g11464 | g11464.t7 | cds | g11464.t7.CDS3 | 16393544 | 16393762 |
| chr_1 | g11464 | g11464.t7 | TSS | g11464.t7 | 16395053 | 16395053 |
Sequences
>g11464.t7 Gene=g11464 Length=1279
ATGGACGCCATTAAGAAGAAGATGCAAGCAATGAAGCTTGAGAAAGATAATGCTCAAGAC
AAAGCTGACACCTGCGAGAATCAAGCCAAGGATGCCAACGCCAAGGCCGCTAAGGTCGAA
GAAGAAGTTGCCGATTTGATCAAGAAATTGGCTCAAGTTGAAAGCGATTTGGAAGCACAC
AAGAATGCTTTGGAGCAAGCCAACAAGGATTTAGAAGAAAAAGAAAAGCTCCTCACAACC
ACAGAATCAGAAGTTGCTGCATTAAACAGAAAAGTACAACAGGTTGAAGAAGATTTGGAA
AAGTCAGAAGAACGCTCATCAACTGCTATGCAAAAACTTTTGGAAGCCACACAAGCTGCT
GATGAAAATAACCGGTATGTATGATGAAAAGATAAATTTAAAAATCAAATTTTAATAATA
ATTTATACTTTGTAATATTTCAGTATGTGCAAGGTATTGGAGAATCGTGCACAGCAAGAT
GAAGAGCGCATGGATCAATTGACAAACCAACTTAAAGAAGCACGTCTCCTTGCTGAAGAC
GCCGATGGTAAATCAGATGAAGTTTCACGCAAGTTGGCCTTCGTTGAAGATGAATTGGAA
GTTGCTGAAGATCGTGTTAAGTCAGGAGAGGCAAAGATCATGGAACTTGAAGAAGAATTG
AAGGTTGTTGGTAACTCATTGAAATCATTGGAAGTATCAGAAGAAAAGGCTAACCAGAGA
GTTGAAGAATTCAAACGTCAATTGAAATCATTGACAATCAAACTTAAGGAAGCCGAAAAT
CGTGCAGAATTGGCTGAGAAGACAGTCAAGAAACTGCAAAAGGAAGTTGACAGACTTGAA
GATGAACTTGGTCTCAACAAAGACAGATACAAGTCACTTGCCGATGAAATGGATTCAACC
TTTGCTGAATTGGCAGGCTATTAAACAATCACCATTGTGTGTGAAATCGAAGCAAAGCGA
AAACTGTGCATGTCTTGAAGAACGTTCTGTAAACAATAACTATTTATTTAAATCACATAA
ACATGATGTATCTCTTTTTTTTTGCTATTCAGATCGAATAACTTTTTTTTGTCCAACACG
AGAAAGTTACTTTTAGAAATCTCATAATGTCTTATTTTACAATACAATAATTGAAAAAGT
ATCAAAAGTTCTAACATTTTTTATTGTTTTATGATGGAAAGAAAATTTTTGTGCTCTCTC
TCTTTTAAAAAACAGAAATCTTAATAAAGAAACTGTAACAAAAAAATCTTATGATGATAG
ATAGAATTTATAGGAAAAT
>g11464.t7 Gene=g11464 Length=159
MCKVLENRAQQDEERMDQLTNQLKEARLLAEDADGKSDEVSRKLAFVEDELEVAEDRVKS
GEAKIMELEEELKVVGNSLKSLEVSEEKANQRVEEFKRQLKSLTIKLKEAENRAELAEKT
VKKLQKEVDRLEDELGLNKDRYKSLADEMDSTFAELAGY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11464.t7 | Coils | Coil | Coil | 2 | 148 | - |
| 6 | g11464.t7 | Gene3D | G3DSA:1.20.5.340 | - | 34 | 134 | 5.3E-19 |
| 2 | g11464.t7 | PANTHER | PTHR19269:SF53 | TROPOMYOSIN-2 | 1 | 159 | 5.7E-90 |
| 3 | g11464.t7 | PANTHER | PTHR19269 | TROPOMYOSIN | 1 | 159 | 5.7E-90 |
| 1 | g11464.t7 | Pfam | PF00261 | Tropomyosin | 1 | 157 | 5.1E-56 |
| 5 | g11464.t7 | ProSitePatterns | PS00326 | Tropomyosins signature. | 107 | 115 | - |
| 4 | g11464.t7 | SUPERFAMILY | SSF57997 | Tropomyosin | 1 | 159 | 7.63E-51 |
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. There were no conditions that were differentially expressed