General information for g11464.t19
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.t19 | isoform | g11464.t19 | 16389951 | 16395040 |
| chr_1 | g11464 | g11464.t19 | exon | g11464.t19.exon1 | 16389951 | 16390388 |
| chr_1 | g11464 | g11464.t19 | TTS | g11464.t19 | 16389991 | 16389991 |
| chr_1 | g11464 | g11464.t19 | cds | g11464.t19.CDS1 | 16390306 | 16390388 |
| chr_1 | g11464 | g11464.t19 | exon | g11464.t19.exon2 | 16393192 | 16393369 |
| chr_1 | g11464 | g11464.t19 | cds | g11464.t19.CDS2 | 16393192 | 16393369 |
| chr_1 | g11464 | g11464.t19 | exon | g11464.t19.exon3 | 16393544 | 16393732 |
| chr_1 | g11464 | g11464.t19 | cds | g11464.t19.CDS3 | 16393544 | 16393732 |
| chr_1 | g11464 | g11464.t19 | exon | g11464.t19.exon4 | 16393829 | 16394255 |
| chr_1 | g11464 | g11464.t19 | cds | g11464.t19.CDS4 | 16393829 | 16394206 |
| chr_1 | g11464 | g11464.t19 | exon | g11464.t19.exon5 | 16395006 | 16395040 |
| chr_1 | g11464 | g11464.t19 | TSS | g11464.t19 | 16395053 | 16395053 |
Sequences
>g11464.t19 Gene=g11464 Length=1267
ATTTTGTGTTGCGAGGATCTTTATAGAGCGCTCAGTTATTTTCATTAGCATTATTTTCGA
GTAGAACAAAGAAAAAGCCTAAAAATGGACGCCATTAAGAAGAAGATGCAAGCAATGAAG
CTTGAGAAAGATAATGCTCAAGACAAAGCTGACACCTGCGAGAATCAAGCCAAGGATGCC
AACGCCAAGGCCGCTAAGGTCGAAGAAGAAGTTGCCGATTTGATCAAGAAATTGGCTCAA
GTTGAAAGCGATTTGGAAGCACACAAGAATGCTTTGGAGCAAGCCAACAAGGATTTAGAA
GAAAAAGAAAAGCTCCTCACAACCACAGAATCAGAAGTTGCTGCATTAAACAGAAAAGTA
CAACAGGTTGAAGAAGATTTGGAAAAGTCAGAAGAACGCTCATCAACTGCTATGCAAAAA
CTTTTGGAAGCCACACAAGCTGCTGATGAAAATAACCGGTATCAAGATGAAGAGCGCATG
GATCAATTGACAAACCAACTTAAAGAAGCACGTCTCCTTGCTGAAGACGCCGATGGTAAA
TCAGATGAAGTTTCACGCAAGTTGGCCTTCGTTGAAGATGAATTGGAAGTTGCTGAAGAT
CGTGTTAAGTCAGGAGAGGCAAAGATCATGGAACTTGAAGAAGAATTGAAGGTTGTTGGT
AACTCATTGAAATCATTGGAAGTATCAGAAGAAAAGGCTAACCAGAGAGTTGAAGAATTC
AAACGTCAATTGAAATCATTGACAATCAAACTTAAGGAAGCCGAAAATCGTGCAGAATTG
GCTGAGAAGACAGTCAAGAAACTGCAAAAGGAAGTTGACAGACTTGAAGATGAACTTGGT
CTCAACAAAGACAGATACAAGTCACTTGCCGATGAAATGGATTCAACCTTTGCTGAATTG
GCAGGCTATTAAACAATCACCATTGTGTGTGAAATCGAAGCAAAGCGAAAACTGTGCATG
TCTTGAAGAACGTTCTGTAAACAATAACTATTTATTTAAATCACATAAACATGATGTATC
TCTTTTTTTTTGCTATTCAGATCGAATAACTTTTTTTTGTCCAACACGAGAAAGTTACTT
TTAGAAATCTCATAATGTCTTATTTTACAATACAATAATTGAAAAAGTATCAAAAGTTCT
AACATTTTTTATTGTTTTATGATGGAAAGAAAATTTTTGTGCTCTCTCTCTTTTAAAAAA
CAGAAATCTTAATAAAGAAACTGTAACAAAAAAATCTTATGATGATAGATAGAATTTATA
GGAAAAT
>g11464.t19 Gene=g11464 Length=275
MDAIKKKMQAMKLEKDNAQDKADTCENQAKDANAKAAKVEEEVADLIKKLAQVESDLEAH
KNALEQANKDLEEKEKLLTTTESEVAALNRKVQQVEEDLEKSEERSSTAMQKLLEATQAA
DENNRYQDEERMDQLTNQLKEARLLAEDADGKSDEVSRKLAFVEDELEVAEDRVKSGEAK
IMELEEELKVVGNSLKSLEVSEEKANQRVEEFKRQLKSLTIKLKEAENRAELAEKTVKKL
QKEVDRLEDELGLNKDRYKSLADEMDSTFAELAGY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g11464.t19 | Coils | Coil | Coil | 1 | 112 | - |
| 12 | g11464.t19 | Coils | Coil | Coil | 125 | 264 | - |
| 11 | g11464.t19 | Gene3D | G3DSA:1.20.5.340 | - | 1 | 79 | 3.9E-24 |
| 10 | g11464.t19 | Gene3D | G3DSA:1.20.5.340 | - | 80 | 129 | 9.8E-6 |
| 9 | g11464.t19 | Gene3D | G3DSA:1.20.5.340 | - | 150 | 250 | 2.1E-18 |
| 15 | g11464.t19 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 27 | - |
| 2 | g11464.t19 | PANTHER | PTHR19269:SF53 | TROPOMYOSIN-2 | 1 | 275 | 1.7E-141 |
| 3 | g11464.t19 | PANTHER | PTHR19269 | TROPOMYOSIN | 1 | 275 | 1.7E-141 |
| 4 | g11464.t19 | PRINTS | PR00194 | Tropomyosin signature | 84 | 101 | 9.6E-38 |
| 7 | g11464.t19 | PRINTS | PR00194 | Tropomyosin signature | 136 | 164 | 9.6E-38 |
| 5 | g11464.t19 | PRINTS | PR00194 | Tropomyosin signature | 166 | 189 | 9.6E-38 |
| 6 | g11464.t19 | PRINTS | PR00194 | Tropomyosin signature | 222 | 247 | 9.6E-38 |
| 1 | g11464.t19 | Pfam | PF00261 | Tropomyosin | 48 | 273 | 3.7E-65 |
| 14 | g11464.t19 | ProSitePatterns | PS00326 | Tropomyosins signature. | 223 | 231 | - |
| 8 | g11464.t19 | SUPERFAMILY | SSF57997 | Tropomyosin | 1 | 274 | 1.31E-78 |
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