General information for g533.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g533 is located on chr_3: 3962445..3963293 (- 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_3 | g533 | g533.t6 | TTS | g533.t6 | 3961763 | 3961763 |
| chr_3 | g533 | g533.t6 | isoform | g533.t6 | 3961796 | 3963293 |
| chr_3 | g533 | g533.t6 | exon | g533.t6.exon1 | 3961796 | 3962649 |
| chr_3 | g533 | g533.t6 | cds | g533.t6.CDS1 | 3962445 | 3962649 |
| chr_3 | g533 | g533.t6 | exon | g533.t6.exon2 | 3962848 | 3963104 |
| chr_3 | g533 | g533.t6 | cds | g533.t6.CDS2 | 3962848 | 3963032 |
| chr_3 | g533 | g533.t6 | exon | g533.t6.exon3 | 3963158 | 3963293 |
| chr_3 | g533 | g533.t6 | TSS | g533.t6 | 3963350 | 3963350 |
Sequences
>g533.t6 Gene=g533 Length=1247
ATGGAAGAAGTGAAATTGGACAAAATTAGAGAATTTGTGAATCGACCTTATAGACCACCA
AAGCCTGTTAGTGCTGATGATCCAACTGACATTCAGGATTTGGATGAAATCAAATTGCAT
GAATTGAAAGAGGTGATGTTTCACACTATTTGACCAAAACAATGATGGATTTATTGATGC
TGATGATTTGCGACAAACATTTAAAACAATGGGAATGGAAGCGGATGACAAGGTGATTGA
AAGTATGATTGCAGATGCCTCGCAACCAATTAACTTTGATAGCTTTGCCATGATGATGTG
CTTTAAAACAATGGAACTTGAACCTGAAATTGTATTGCTTGAAGCATTGTCAAAATGGGA
TGAGAGAATTCAAGGCGTCATCAGTTTAGAAAGAATTTTCGCTCATTTAACCACCTACAA
CAATGATAGATTGAGTGTTGAAGAAGCGAAGGAAGTAATAAATGAAGCACCATTGATGCA
AACGAAAGAAGGATTGCGTGGGCTTGAAAGTCCAACAGACAGTTGGATCGATTATCTGTT
ATGGGTTGAGAAATTTGCTGGATTCCGTAAACCACGAGCGGCAAATTATTCAATTTAAGA
GAGAGAGAAAAAATGTTTATTTTCACTTGTGTGCGTGTGTGTTTGTGTAAATAATCGAAT
CTCATAATCTCAAAGTGCTGTCGTACATTCGCATCGAAAAGATAAATCATCTCATAAATT
TTATACATACATGACATGCATCCCATGAAATAGTTAGTCAATAAAAATTCATAAATTCAT
GTTCATAAAAATTTCTTCTTTTTCACATTCGCACTCGCTTTTTTTGTGGCGCGCTTTGAA
ATTATGAGGTGGAAAGATATTAAGTTTATTTATAATGCGATTTCATGAAAATCATTACTA
TATGAAGGAAATTGCGAGAGGTAATAAGTGAAATAAGGGATAAATTTTATTACCATAATT
GAATTTTATCATTAGCATCAACTTTTTCAACCATAAAATGCTCCCTTCTTTCTGTCTGTC
GTTCAGGGATTATTTCTTCTGCAAATTAAAATTCGAAAGACATGTATAAGTTATTGTACT
TTTTTCGATCTTTTGTGTGTGCAAATTAAAGCTTCTTTAGCTCTCTCTCGCTCTGTGGAT
GTCAATAAGAATAAATTTATTTCTGCTCTCTCTCTATGAAAAAAAAATGTGTGCGTGCAT
GATATTCACATTTGGGCAAAAGCAACAGCAGCAGCTTGAATTGAAAA
>g533.t6 Gene=g533 Length=129
MGMEADDKVIESMIADASQPINFDSFAMMMCFKTMELEPEIVLLEALSKWDERIQGVISL
ERIFAHLTTYNNDRLSVEEAKEVINEAPLMQTKEGLRGLESPTDSWIDYLLWVEKFAGFR
KPRAANYSI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g533.t6 | Gene3D | G3DSA:1.10.238.10 | - | 1 | 100 | 7e-06 |
| 1 | g533.t6 | PANTHER | PTHR23049 | MYOSIN REGULATORY LIGHT CHAIN 2 | 2 | 119 | 0e+00 |
| 2 | g533.t6 | PANTHER | PTHR23049:SF65 | MYOSIN REGULATORY LIGHT CHAIN 2 | 2 | 119 | 0e+00 |
| 3 | g533.t6 | SUPERFAMILY | SSF47473 | EF-hand | 2 | 88 | 0e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g533/g533.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g533.t6.fa.iupred3.txt does not exist
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