General information for g533.t5
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.t5 | TTS | g533.t5 | 3961763 | 3961763 |
| chr_3 | g533 | g533.t5 | isoform | g533.t5 | 3961796 | 3963106 |
| chr_3 | g533 | g533.t5 | exon | g533.t5.exon1 | 3961796 | 3962649 |
| chr_3 | g533 | g533.t5 | cds | g533.t5.CDS1 | 3962445 | 3962649 |
| chr_3 | g533 | g533.t5 | exon | g533.t5.exon2 | 3962848 | 3963106 |
| chr_3 | g533 | g533.t5 | cds | g533.t5.CDS2 | 3962848 | 3963032 |
| chr_3 | g533 | g533.t5 | TSS | g533.t5 | 3963350 | 3963350 |
Sequences
>g533.t5 Gene=g533 Length=1113
AGTGTTTCACACTATTTGACCAAAACAATGATGGATTTATTGATGCTGATGATTTGCGAC
AAACATTTAAAACAATGGGAATGGAAGCGGATGACAAGGTGATTGAAAGTATGATTGCAG
ATGCCTCGCAACCAATTAACTTTGATAGCTTTGCCATGATGATGTGCTTTAAAACAATGG
AACTTGAACCTGAAATTGTATTGCTTGAAGCATTGTCAAAATGGGATGAGAGAATTCAAG
GCGTCATCAGTTTAGAAAGAATTTTCGCTCATTTAACCACCTACAACAATGATAGATTGA
GTGTTGAAGAAGCGAAGGAAGTAATAAATGAAGCACCATTGATGCAAACGAAAGAAGGAT
TGCGTGGGCTTGAAAGTCCAACAGACAGTTGGATCGATTATCTGTTATGGGTTGAGAAAT
TTGCTGGATTCCGTAAACCACGAGCGGCAAATTATTCAATTTAAGAGAGAGAGAAAAAAT
GTTTATTTTCACTTGTGTGCGTGTGTGTTTGTGTAAATAATCGAATCTCATAATCTCAAA
GTGCTGTCGTACATTCGCATCGAAAAGATAAATCATCTCATAAATTTTATACATACATGA
CATGCATCCCATGAAATAGTTAGTCAATAAAAATTCATAAATTCATGTTCATAAAAATTT
CTTCTTTTTCACATTCGCACTCGCTTTTTTTGTGGCGCGCTTTGAAATTATGAGGTGGAA
AGATATTAAGTTTATTTATAATGCGATTTCATGAAAATCATTACTATATGAAGGAAATTG
CGAGAGGTAATAAGTGAAATAAGGGATAAATTTTATTACCATAATTGAATTTTATCATTA
GCATCAACTTTTTCAACCATAAAATGCTCCCTTCTTTCTGTCTGTCGTTCAGGGATTATT
TCTTCTGCAAATTAAAATTCGAAAGACATGTATAAGTTATTGTACTTTTTTCGATCTTTT
GTGTGTGCAAATTAAAGCTTCTTTAGCTCTCTCTCGCTCTGTGGATGTCAATAAGAATAA
ATTTATTTCTGCTCTCTCTCTATGAAAAAAAAATGTGTGCGTGCATGATATTCACATTTG
GGCAAAAGCAACAGCAGCAGCTTGAATTGAAAA
>g533.t5 Gene=g533 Length=129
MGMEADDKVIESMIADASQPINFDSFAMMMCFKTMELEPEIVLLEALSKWDERIQGVISL
ERIFAHLTTYNNDRLSVEEAKEVINEAPLMQTKEGLRGLESPTDSWIDYLLWVEKFAGFR
KPRAANYSI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g533.t5 | Gene3D | G3DSA:1.10.238.10 | - | 1 | 100 | 7e-06 |
| 1 | g533.t5 | PANTHER | PTHR23049 | MYOSIN REGULATORY LIGHT CHAIN 2 | 2 | 119 | 0e+00 |
| 2 | g533.t5 | PANTHER | PTHR23049:SF65 | MYOSIN REGULATORY LIGHT CHAIN 2 | 2 | 119 | 0e+00 |
| 3 | g533.t5 | 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.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g533.t5.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