General information for g11466.t80
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Tropomyosin-2.
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.t80 | isoform | g11466.t80 | 16402266 | 16406103 |
| chr_1 | g11466 | g11466.t80 | exon | g11466.t80.exon1 | 16402266 | 16402962 |
| chr_1 | g11466 | g11466.t80 | cds | g11466.t80.CDS1 | 16402818 | 16402962 |
| chr_1 | g11466 | g11466.t80 | exon | g11466.t80.exon2 | 16403395 | 16403528 |
| chr_1 | g11466 | g11466.t80 | cds | g11466.t80.CDS2 | 16403395 | 16403528 |
| chr_1 | g11466 | g11466.t80 | exon | g11466.t80.exon3 | 16404974 | 16405776 |
| chr_1 | g11466 | g11466.t80 | cds | g11466.t80.CDS3 | 16404974 | 16405639 |
| chr_1 | g11466 | g11466.t80 | exon | g11466.t80.exon4 | 16405886 | 16406103 |
| chr_1 | g11466 | g11466.t80 | TSS | g11466.t80 | 16407060 | 16407060 |
| chr_1 | g11466 | g11466.t80 | TTS | g11466.t80 | NA | NA |
Sequences
>g11466.t80 Gene=g11466 Length=1852
TTTCATAATAAGTCTCAAACTCCTTCGGAATGAAAAATTGAGAAAGATTTGTAAGTGAAG
CCCACATCGGTAGTCGTTGTCGTCATAAATTGAGGCAATAGGCAATAAAGATATATTTAG
AACGCAAAAATATTAAGTCATCACGCTAGATTCATTCACTTTTGAGCCAAAGTCATAGAA
TTTTCCTCACTACTTTTTCTTCTTAACGACATCATTTTAGTAAACACAATTTTGTAGAAC
TTGAGGTGCACAATTGAAAGAATTTGAAATACATATAAAAGAAAAATAATACATATAGGT
ATAGATAGAAAAAAAATATGTGATAAAGAAATTTTCACCAAATGGCATTAACACAATGAC
TGAAAGAAGTGCTCATCCGACAAATAAATCTAGGCGAGGTCATCAATATCATCCCAAAAA
TATAGGCAGCAGAGGAACTTGTCGTAATGTTCCGACAAGTGAAATAATTGAAGCTCTGAG
GGAGGGCAGAAACTTGGAGTCATTATTTATACAGCATCATCAAAGTCAACATGAAAATAT
TCAATCCGATTTACCATCAGACTTAACATTATCAACATCATCAGATGCATCAAGTCAATC
TGATCAAACTACAACATTTCACAATTTGGATTTTAATTCGAGAGAAGAATTTCAAGAAAA
CATTAGCGAAGAAATTTCAATATCCAGCAACACACAAAAATATTCAAAGAGTTCAGAGCC
AAAGAGGAAGAGAAGTAAGGGTTCACAAAATGACGTACTGAGAGTTGTGCAATCAACAAG
CAATGAAATCCTTAATAATATCAATGAAGACGATGATGCCGAAATGGTGGAGCTAGCTAA
ACTGCGATGTACGAGTGAGAGAACTGAAGTTATCGCCGAACGAGAACACCGAAGACAAAA
GAAGTGTGCAGATTATCCTGGTCTTGCATTCGGACGATCGATCTTTAGCTCAGATTCAAT
GATGAAATTTAATATAATTAGAAATGAATTACAAAATATCATGAATAATCAATTAAGAAG
GGCTGAATCAGAAGTCGCTGCTTTGAACCGTCGTATTCAACTTTTGGAAGAAGACCTCGA
ACGTTCTGAAGAGCGTTTGGCATCTGCTACCGCAAAGTTGTCAGAAGCATCAGCTGCTGC
TGATGAATCTGAACGTGCCCGTAAAGTTCTTGAAAACCGTTCACTTGCCGATGAAGAGCG
TATGGATGCTCTTGAAAATCAATTGAAGGAAGCTCGCTTCCTCGCTGAAGAAGCTGACAA
GAAATACGATGAGGTGCAAAAACTAGACAAAATAACTTGACTCTAATAACTCTAAATAAT
TTTTTTCCCATTAATAACAACAATGATGATGTTTTTTTCTCTTTTTGTATTCGCAATACT
GTTTTGGAATGAGAAAGAGTGATAAATCACTTGCCTTAATAACTCAAGAGTTAGGAACTT
TTTAAGCAACCAAGAATATGCCTAAAACAAGAACGATAGATATCTATACATATTTAAAAA
CGAAAACAATGTTCTTGATGTAATATTTGATGACTAAAACATAATTACATACTAATTTTT
TTCAACAATTTCATAATAAATTATTATTTCATTTTTTAAATGCATTGCATTAAATATTTG
ATCTAATTTTTATTAAAAAAATTATTGTAAAAGAATAAAATTTATCAATTCAAAAAAGAC
TAATTTTTTCTGCTATACATCTTTTATGAGATTTATCTGTCATCTTTGAAATCTTTCAGG
AAACTTGCGTTAATTGTTCACAAAGATGGCAGATTGTTGTGGAAATAATTTCACCTCAAT
TAATATTTCATCTTCAAAAGATTTTAATTAACATTTTCTCTTTTGAGAAATG
>g11466.t80 Gene=g11466 Length=314
MTERSAHPTNKSRRGHQYHPKNIGSRGTCRNVPTSEIIEALREGRNLESLFIQHHQSQHE
NIQSDLPSDLTLSTSSDASSQSDQTTTFHNLDFNSREEFQENISEEISISSNTQKYSKSS
EPKRKRSKGSQNDVLRVVQSTSNEILNNINEDDDAEMVELAKLRCTSERTEVIAEREHRR
QKKCADYPGLAFGRSIFSSDSMMKFNIIRNELQNIMNNQLRRAESEVAALNRRIQLLEED
LERSEERLASATAKLSEASAAADESERARKVLENRSLADEERMDALENQLKEARFLAEEA
DKKYDEVQKLDKIT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g11466.t80 | Coils | Coil | Coil | 213 | 310 | - |
| 10 | g11466.t80 | Gene3D | G3DSA:1.20.5.340 | - | 200 | 281 | 1.4E-11 |
| 8 | g11466.t80 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 31 | - |
| 9 | g11466.t80 | MobiDBLite | mobidb-lite | consensus disorder prediction | 71 | 93 | - |
| 7 | g11466.t80 | MobiDBLite | mobidb-lite | consensus disorder prediction | 105 | 133 | - |
| 2 | g11466.t80 | PANTHER | PTHR19269 | TROPOMYOSIN | 159 | 309 | 1.1E-49 |
| 4 | g11466.t80 | PRINTS | PR00194 | Tropomyosin signature | 226 | 243 | 7.8E-26 |
| 5 | g11466.t80 | PRINTS | PR00194 | Tropomyosin signature | 262 | 282 | 7.8E-26 |
| 3 | g11466.t80 | PRINTS | PR00194 | Tropomyosin signature | 287 | 314 | 7.8E-26 |
| 1 | g11466.t80 | Pfam | PF00261 | Tropomyosin | 217 | 309 | 8.2E-34 |
| 6 | g11466.t80 | SUPERFAMILY | SSF57997 | Tropomyosin | 215 | 308 | 1.14E-28 |
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.
