General information for g5624.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5624 is located on chr_2: 10713308..10715366 (- 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_2 | g5624 | g5624.t2 | isoform | g5624.t2 | 10713308 | 10714537 |
| chr_2 | g5624 | g5624.t2 | exon | g5624.t2.exon1 | 10713308 | 10714281 |
| chr_2 | g5624 | g5624.t2 | cds | g5624.t2.CDS1 | 10713309 | 10714079 |
| chr_2 | g5624 | g5624.t2 | exon | g5624.t2.exon2 | 10714341 | 10714537 |
| chr_2 | g5624 | g5624.t2 | TSS | g5624.t2 | 10715459 | 10715459 |
| chr_2 | g5624 | g5624.t2 | TTS | g5624.t2 | NA | NA |
Sequences
>g5624.t2 Gene=g5624 Length=1171
AATGCAGAAATAAAGAGTCAAGTGGATAAAAAGGAAAGGAAAATTAAAGAACTTCAAGCT
GAACTTAATGGAGTTGATGATAAATTTAAGAAACTTGAAGATGCTTTAATCCCACTTCAA
GAAGAAAATTTGAAAATCTTGGAAAAAGAACGGAACTACAGTAAACATTTATCTGAGCAG
CAAAATTGTAGAAATATATTCAATAACAAAAAGGATGAATATGTTAAATTACAAGAAAGA
ATTACTAAAAATGGCGGAAAAATCGACAGAGATTTAGAATCTTTGAAACAACAACAATTA
AATTTTGAAAAAGATCGACAAGATCGAGAGAAAAACAAGGAATCTCTTGAAGAAGAATGC
AAAAAGCTCAAATCTTTAAAGGAGAAGAAGAGAAATGATATGATGACTCTCAATGGAAAG
ATGCATGAATATACTAGTGATTATCAGCGTCTTCAAGATATTTTTGCAGAAAGATTTGAT
AAAATGCAAGAAATATGTTCTAAACTTAACATTCCATTTACCGATGATATGGATCAGTCA
ATAAACACTCAATCTCTTGCTGATACATTGAGTAATATTAAACAATATATTTTAAGTGCT
GAAGAAAATTTTGTACGTTTAAAAGCTGAAGCAAAAAAAGATGAAGATGCATATCAGTTA
AACATTGATAAAATCCGTGAAGAACGTACAAAATTGGAAACAAATATAGCAACACAGCGA
AATTTAATCCAGGAAAAAACTGAAATTATTGCAAAACTTAAAAGAGAAATTGCAAGTACT
GAAAGTCTCATTCCAAAGCTCAAGGAAATTCAACCACAGATAGAAGCAACTGAAAAAAAA
TTAAAACGGCTAAATGATGAAAACAATACTGAAGATATGACACTGCAGCAAAGCCTTCTG
CAAACTGAAATATTGGAATTAGAAGATGATCAAGTAAAAATTGACAAAAGTATCGAAGTT
TTGCACTCTGCATCACAATTTACAAACGAACTCGAATCAAAGCAAAAGGAATTGACTGAG
AATCAAAAAGAATATACTCGATTGAAAAACAAATCTGCATCAAATTTTAAAGCTCTTTTC
TCAAACAAAGATATTGAAAACAATTTTCATCATCAAATGCAAGCAAAACAAACGGAGCTT
AAAAAAGGAATCAATGATGTTGAAACGAAAA
>g5624.t2 Gene=g5624 Length=257
MMTLNGKMHEYTSDYQRLQDIFAERFDKMQEICSKLNIPFTDDMDQSINTQSLADTLSNI
KQYILSAEENFVRLKAEAKKDEDAYQLNIDKIREERTKLETNIATQRNLIQEKTEIIAKL
KREIASTESLIPKLKEIQPQIEATEKKLKRLNDENNTEDMTLQQSLLQTEILELEDDQVK
IDKSIEVLHSASQFTNELESKQKELTENQKEYTRLKNKSASNFKALFSNKDIENNFHHQM
QAKQTELKKGINDVETK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g5624.t2 | Coils | Coil | Coil | 64 | 161 | - |
| 1 | g5624.t2 | Coils | Coil | Coil | 191 | 218 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5624/g5624.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5624.t2.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