General information for g11464.t30
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tropomyosin-2.
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.t30 | isoform | g11464.t30 | 16392319 | 16395040 |
| chr_1 | g11464 | g11464.t30 | exon | g11464.t30.exon1 | 16392319 | 16392401 |
| chr_1 | g11464 | g11464.t30 | cds | g11464.t30.CDS1 | 16392319 | 16392401 |
| chr_1 | g11464 | g11464.t30 | exon | g11464.t30.exon2 | 16393192 | 16393369 |
| chr_1 | g11464 | g11464.t30 | cds | g11464.t30.CDS2 | 16393192 | 16393369 |
| chr_1 | g11464 | g11464.t30 | exon | g11464.t30.exon3 | 16393544 | 16393763 |
| chr_1 | g11464 | g11464.t30 | cds | g11464.t30.CDS3 | 16393544 | 16393763 |
| chr_1 | g11464 | g11464.t30 | exon | g11464.t30.exon4 | 16393833 | 16394255 |
| chr_1 | g11464 | g11464.t30 | cds | g11464.t30.CDS4 | 16393833 | 16394206 |
| chr_1 | g11464 | g11464.t30 | exon | g11464.t30.exon5 | 16395006 | 16395040 |
| chr_1 | g11464 | g11464.t30 | TSS | g11464.t30 | 16395053 | 16395053 |
| chr_1 | g11464 | g11464.t30 | TTS | g11464.t30 | NA | NA |
Sequences
>g11464.t30 Gene=g11464 Length=939
ATTTTGTGTTGCGAGGATCTTTATAGAGCGCTCAGTTATTTTCATTAGCATTATTTTCGA
GTAGAACAAAGAAAAAGCCTAAAAATGGACGCCATTAAGAAGAAGATGCAAGCAATGAAG
CTTGAGAAAGATAATGCTCAAGACAAAGCTGACACCTGCGAGAATCAAGCCAAGGATGCC
AACGCCAAGGCCGCTAAGGTCGAAGAAGAAGTTGCCGATTTGATCAAGAAATTGGCTCAA
GTTGAAAGCGATTTGGAAGCACACAAGAATGCTTTGGAGCAAGCCAACAAGGATTTAGAA
GAAAAAGAAAAGCTCCTCACAACCACAGAATCAGAAGTTGCTGCATTAAACAGAAAAGTA
CAACAGGTTGAAGAAGATTTGGAAAAGTCAGAAGAACGCTCATCAACTGCTATGCAAAAA
CTTTTGGAAGCCACACAAGCTGCTGATGAAAATAACCGTATGTGCAAGGTATTGGAGAAT
CGTGCACAGCAAGATGAAGAGCGCATGGATCAATTGACAAACCAACTTAAAGAAGCACGT
CTCCTTGCTGAAGACGCCGATGGTAAATCAGATGAAGTTTCACGCAAGTTGGCCTTCGTT
GAAGATGAATTGGAAGTTGCTGAAGATCGTGTTAAGTCAGGAGAGGCAAAGATCATGGAA
CTTGAAGAAGAATTGAAGGTTGTTGGTAACTCATTGAAATCATTGGAAGTATCAGAAGAA
AAGGCTAACCAGAGAGTTGAAGAATTCAAACGTCAATTGAAATCATTGACAATCAAACTT
AAGGAAGCCGAAAATCGTGCAGAATTGGCTGAGAAGACAGTCAAGAAACTGCAAAAGGAA
GTTGACAGACTTGAAGACAAGCTCGCAGTTCAAAAAGAAACATACAATGCTATCTGCACG
GATATGGACACTACCTTTGCCGAAATGGCAGGATTTTAA
>g11464.t30 Gene=g11464 Length=284
MDAIKKKMQAMKLEKDNAQDKADTCENQAKDANAKAAKVEEEVADLIKKLAQVESDLEAH
KNALEQANKDLEEKEKLLTTTESEVAALNRKVQQVEEDLEKSEERSSTAMQKLLEATQAA
DENNRMCKVLENRAQQDEERMDQLTNQLKEARLLAEDADGKSDEVSRKLAFVEDELEVAE
DRVKSGEAKIMELEEELKVVGNSLKSLEVSEEKANQRVEEFKRQLKSLTIKLKEAENRAE
LAEKTVKKLQKEVDRLEDKLAVQKETYNAICTDMDTTFAEMAGF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g11464.t30 | Coils | Coil | Coil | 1 | 112 | - |
| 13 | g11464.t30 | Coils | Coil | Coil | 120 | 266 | - |
| 12 | g11464.t30 | Gene3D | G3DSA:1.20.5.340 | - | 1 | 79 | 4.4E-24 |
| 11 | g11464.t30 | Gene3D | G3DSA:1.20.5.340 | - | 80 | 139 | 1.2E-8 |
| 10 | g11464.t30 | Gene3D | G3DSA:1.20.5.340 | - | 159 | 259 | 4.0E-18 |
| 16 | g11464.t30 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 27 | - |
| 2 | g11464.t30 | PANTHER | PTHR19269:SF53 | TROPOMYOSIN-2 | 1 | 283 | 2.9E-153 |
| 3 | g11464.t30 | PANTHER | PTHR19269 | TROPOMYOSIN | 1 | 283 | 2.9E-153 |
| 6 | g11464.t30 | PRINTS | PR00194 | Tropomyosin signature | 84 | 101 | 7.5E-47 |
| 8 | g11464.t30 | PRINTS | PR00194 | Tropomyosin signature | 120 | 140 | 7.5E-47 |
| 4 | g11464.t30 | PRINTS | PR00194 | Tropomyosin signature | 145 | 173 | 7.5E-47 |
| 7 | g11464.t30 | PRINTS | PR00194 | Tropomyosin signature | 175 | 198 | 7.5E-47 |
| 5 | g11464.t30 | PRINTS | PR00194 | Tropomyosin signature | 231 | 256 | 7.5E-47 |
| 1 | g11464.t30 | Pfam | PF00261 | Tropomyosin | 48 | 282 | 1.0E-74 |
| 15 | g11464.t30 | ProSitePatterns | PS00326 | Tropomyosins signature. | 232 | 240 | - |
| 9 | g11464.t30 | SUPERFAMILY | SSF57997 | Tropomyosin | 1 | 283 | 1.77E-85 |
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 transcript has been annotated with K10374 (tropomyosin 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.
