General information for g11466.t60
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Tropomyosin-1, isoforms 9A/A/B.
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.t60 | TTS | g11466.t60 | 16398326 | 16398326 |
| chr_1 | g11466 | g11466.t60 | isoform | g11466.t60 | 16399209 | 16404672 |
| chr_1 | g11466 | g11466.t60 | exon | g11466.t60.exon1 | 16399209 | 16399291 |
| chr_1 | g11466 | g11466.t60 | exon | g11466.t60.exon2 | 16399504 | 16399562 |
| chr_1 | g11466 | g11466.t60 | exon | g11466.t60.exon3 | 16400314 | 16400376 |
| chr_1 | g11466 | g11466.t60 | exon | g11466.t60.exon4 | 16400819 | 16400894 |
| chr_1 | g11466 | g11466.t60 | exon | g11466.t60.exon5 | 16403099 | 16403253 |
| chr_1 | g11466 | g11466.t60 | cds | g11466.t60.CDS1 | 16403136 | 16403253 |
| chr_1 | g11466 | g11466.t60 | exon | g11466.t60.exon6 | 16403395 | 16403528 |
| chr_1 | g11466 | g11466.t60 | cds | g11466.t60.CDS2 | 16403395 | 16403528 |
| chr_1 | g11466 | g11466.t60 | exon | g11466.t60.exon7 | 16404204 | 16404672 |
| chr_1 | g11466 | g11466.t60 | cds | g11466.t60.CDS3 | 16404204 | 16404347 |
| chr_1 | g11466 | g11466.t60 | TSS | g11466.t60 | 16404668 | 16404668 |
Sequences
>g11466.t60 Gene=g11466 Length=1039
AATTAGGTTTCGCCCATTTTTTTATTGATGACTTAAATCATTCCGCGAGTGAGTTTTAAG
TAAATTAAAGTGATAAATAACAAATATTAATTAATTTCAATCTTTTCCTCACTATATTTG
ATCATTAATAATTCGATTTATCTTGGTTATAGTTGTAAAATTTTCAAGTTACACTGAAAA
TTTTGTATTTTAAAAAAGAAGAAGTATTAGCAATTGAGCGAAAAAAATTTGAGTTTTGCG
GTGTGGTGTTCTAATTTTTAACTAAGTAAAAAAGAAAAAAATATTTTTTAAGTGAAATTT
AATACTAAAGAAAAAAGTTTCAACAATGACGACAAATTTGCAACAAGGCACACTCCTTGA
TGTTCTCAAGAAAAAAATGCGTCAAACAAAAGAAGAAATGGAGCGCTATAAGGATGAATG
TGAAGAATTTAATCGCAAATATCAACTTGAAGCAATGAGACGCGAAGAAGCTGAATCAGA
AGTCGCTGCTTTGAACCGTCGTATTCAACTTTTGGAAGAAGACCTCGAACGTTCTGAAGA
GCGTTTGGCATCTGCTACCGCAAAGTTGTCAGAAGCATCAGCTGCTGCTGATGAATCTGA
ACGAAAAGCTTTGGAAAATCGCACCAATATGGAAGATGATCGAGTGGCCATCCTAGAAGC
TCAATTAACGCAGGCGAAATTAATTGCAGAAGAAGCCGATAAAAAATACGAGGAGGTATA
AATTGAAAAAGCTTTTAAATTCTTCGAAATTGGTTAGGCAAAATTGTTGAACTTGAAGAA
GAACTTCGCGTCGTCGGTAACAACTTGAAGTCATTGGAAGTGTCAGAAGAGAAGGCAACA
CAAAGGGAGGAGACGTTTGAAGGTCAAGTGAGAATACTGGAAGGACACTTAAAGGAGAGC
CGAATTTGCTGAACGTTCAGTTCAGAAATTGCAGAAAGAAGTCGACAGACTTGAAGATGA
ATTGTTAAATGAGCGTGCACGAAACAAGATGCTCCAGGAAGAAATGGAAGCGACACTTCA
TGATATTCAGAATATGTAA
>g11466.t60 Gene=g11466 Length=131
MTTNLQQGTLLDVLKKKMRQTKEEMERYKDECEEFNRKYQLEAMRREEAESEVAALNRRI
QLLEEDLERSEERLASATAKLSEASAAADESERKALENRTNMEDDRVAILEAQLTQAKLI
AEEADKKYEEV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g11466.t60 | Coils | Coil | Coil | 11 | 94 | - |
| 11 | g11466.t60 | Coils | Coil | Coil | 107 | 127 | - |
| 10 | g11466.t60 | Gene3D | G3DSA:1.20.5.340 | - | 8 | 105 | 6.5E-14 |
| 8 | g11466.t60 | MobiDBLite | mobidb-lite | consensus disorder prediction | 74 | 101 | - |
| 9 | g11466.t60 | MobiDBLite | mobidb-lite | consensus disorder prediction | 86 | 101 | - |
| 2 | g11466.t60 | PANTHER | PTHR19269:SF45 | TROPOMYOSIN-1, ISOFORMS 33/34 | 12 | 131 | 5.8E-36 |
| 3 | g11466.t60 | PANTHER | PTHR19269 | TROPOMYOSIN | 12 | 131 | 5.8E-36 |
| 5 | g11466.t60 | PRINTS | PR00194 | Tropomyosin signature | 52 | 69 | 1.7E-19 |
| 6 | g11466.t60 | PRINTS | PR00194 | Tropomyosin signature | 86 | 106 | 1.7E-19 |
| 4 | g11466.t60 | PRINTS | PR00194 | Tropomyosin signature | 111 | 131 | 1.7E-19 |
| 1 | g11466.t60 | Pfam | PF00261 | Tropomyosin | 16 | 131 | 5.9E-35 |
| 7 | g11466.t60 | SUPERFAMILY | SSF57997 | Tropomyosin | 11 | 131 | 2.62E-26 |
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.
