General information for g11464.t24
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.t24 | isoform | g11464.t24 | 16389951 | 16395040 |
| chr_1 | g11464 | g11464.t24 | exon | g11464.t24.exon1 | 16389951 | 16390277 |
| chr_1 | g11464 | g11464.t24 | TTS | g11464.t24 | 16389991 | 16389991 |
| chr_1 | g11464 | g11464.t24 | cds | g11464.t24.CDS1 | 16390252 | 16390277 |
| chr_1 | g11464 | g11464.t24 | exon | g11464.t24.exon2 | 16393192 | 16393369 |
| chr_1 | g11464 | g11464.t24 | cds | g11464.t24.CDS2 | 16393192 | 16393369 |
| chr_1 | g11464 | g11464.t24 | exon | g11464.t24.exon3 | 16393544 | 16393763 |
| chr_1 | g11464 | g11464.t24 | cds | g11464.t24.CDS3 | 16393544 | 16393763 |
| chr_1 | g11464 | g11464.t24 | exon | g11464.t24.exon4 | 16393833 | 16394255 |
| chr_1 | g11464 | g11464.t24 | cds | g11464.t24.CDS4 | 16393833 | 16394206 |
| chr_1 | g11464 | g11464.t24 | exon | g11464.t24.exon5 | 16395006 | 16395040 |
| chr_1 | g11464 | g11464.t24 | TSS | g11464.t24 | 16395053 | 16395053 |
Sequences
>g11464.t24 Gene=g11464 Length=1183
ATTTTGTGTTGCGAGGATCTTTATAGAGCGCTCAGTTATTTTCATTAGCATTATTTTCGA
GTAGAACAAAGAAAAAGCCTAAAAATGGACGCCATTAAGAAGAAGATGCAAGCAATGAAG
CTTGAGAAAGATAATGCTCAAGACAAAGCTGACACCTGCGAGAATCAAGCCAAGGATGCC
AACGCCAAGGCCGCTAAGGTCGAAGAAGAAGTTGCCGATTTGATCAAGAAATTGGCTCAA
GTTGAAAGCGATTTGGAAGCACACAAGAATGCTTTGGAGCAAGCCAACAAGGATTTAGAA
GAAAAAGAAAAGCTCCTCACAACCACAGAATCAGAAGTTGCTGCATTAAACAGAAAAGTA
CAACAGGTTGAAGAAGATTTGGAAAAGTCAGAAGAACGCTCATCAACTGCTATGCAAAAA
CTTTTGGAAGCCACACAAGCTGCTGATGAAAATAACCGTATGTGCAAGGTATTGGAGAAT
CGTGCACAGCAAGATGAAGAGCGCATGGATCAATTGACAAACCAACTTAAAGAAGCACGT
CTCCTTGCTGAAGACGCCGATGGTAAATCAGATGAAGTTTCACGCAAGTTGGCCTTCGTT
GAAGATGAATTGGAAGTTGCTGAAGATCGTGTTAAGTCAGGAGAGGCAAAGATCATGGAA
CTTGAAGAAGAATTGAAGGTTGTTGGTAACTCATTGAAATCATTGGAAGTATCAGAAGAA
AAGGCTAACCAGAGAGTTGAAGAATTCAAACGTCAATTGAAATCATTGACAATCAAACTT
AAGGAAGCCGAAAATCGTGCAGAATTGGCTGAGAAGACAGTCAAGAAACTGCAAAAGGAA
GTTGACAGACTTGAAGCAAAGCGAAAACTGTGCATGTCTTGAAGAACGTTCTGTAAACAA
TAACTATTTATTTAAATCACATAAACATGATGTATCTCTTTTTTTTTGCTATTCAGATCG
AATAACTTTTTTTTGTCCAACACGAGAAAGTTACTTTTAGAAATCTCATAATGTCTTATT
TTACAATACAATAATTGAAAAAGTATCAAAAGTTCTAACATTTTTTATTGTTTTATGATG
GAAAGAAAATTTTTGTGCTCTCTCTCTTTTAAAAAACAGAAATCTTAATAAAGAAACTGT
AACAAAAAAATCTTATGATGATAGATAGAATTTATAGGAAAAT
>g11464.t24 Gene=g11464 Length=265
MDAIKKKMQAMKLEKDNAQDKADTCENQAKDANAKAAKVEEEVADLIKKLAQVESDLEAH
KNALEQANKDLEEKEKLLTTTESEVAALNRKVQQVEEDLEKSEERSSTAMQKLLEATQAA
DENNRMCKVLENRAQQDEERMDQLTNQLKEARLLAEDADGKSDEVSRKLAFVEDELEVAE
DRVKSGEAKIMELEEELKVVGNSLKSLEVSEEKANQRVEEFKRQLKSLTIKLKEAENRAE
LAEKTVKKLQKEVDRLEAKRKLCMS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g11464.t24 | Coils | Coil | Coil | 1 | 112 | - |
| 13 | g11464.t24 | Coils | Coil | Coil | 120 | 265 | - |
| 12 | g11464.t24 | Gene3D | G3DSA:1.20.5.340 | - | 1 | 79 | 3.6E-24 |
| 11 | g11464.t24 | Gene3D | G3DSA:1.20.5.340 | - | 80 | 140 | 9.0E-9 |
| 10 | g11464.t24 | Gene3D | G3DSA:1.20.5.340 | - | 159 | 258 | 9.6E-18 |
| 16 | g11464.t24 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 27 | - |
| 2 | g11464.t24 | PANTHER | PTHR19269:SF53 | TROPOMYOSIN-2 | 1 | 258 | 1.5E-140 |
| 3 | g11464.t24 | PANTHER | PTHR19269 | TROPOMYOSIN | 1 | 258 | 1.5E-140 |
| 6 | g11464.t24 | PRINTS | PR00194 | Tropomyosin signature | 84 | 101 | 5.7E-47 |
| 8 | g11464.t24 | PRINTS | PR00194 | Tropomyosin signature | 120 | 140 | 5.7E-47 |
| 4 | g11464.t24 | PRINTS | PR00194 | Tropomyosin signature | 145 | 173 | 5.7E-47 |
| 7 | g11464.t24 | PRINTS | PR00194 | Tropomyosin signature | 175 | 198 | 5.7E-47 |
| 5 | g11464.t24 | PRINTS | PR00194 | Tropomyosin signature | 231 | 256 | 5.7E-47 |
| 1 | g11464.t24 | Pfam | PF00261 | Tropomyosin | 48 | 259 | 9.8E-67 |
| 15 | g11464.t24 | ProSitePatterns | PS00326 | Tropomyosins signature. | 232 | 240 | - |
| 9 | g11464.t24 | SUPERFAMILY | SSF57997 | Tropomyosin | 1 | 259 | 3.93E-77 |
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