General information for g545.t32
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g545 is located on chr_3: 4002413..4003652 (- 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 | g545 | g545.t32 | isoform | g545.t32 | 3999312 | 3999870 |
| chr_3 | g545 | g545.t32 | exon | g545.t32.exon1 | 3999312 | 3999870 |
| chr_3 | g545 | g545.t32 | cds | g545.t32.CDS1 | 3999314 | 3999661 |
| chr_3 | g545 | g545.t32 | TSS | g545.t32 | NA | NA |
| chr_3 | g545 | g545.t32 | TTS | g545.t32 | NA | NA |
Sequences
>g545.t32 Gene=g545 Length=559
ATCCAAAAGGAGGAAAAAAGAAGGAAGAAGAGCAGCAACAAGCTTCACAATCACAAGTTA
CAAGAATTTTGAAAATCACAAGAACATTTAGAAATAGTGAAGGAAGGGAATATACTCGAG
CTGAAACTGTTCGTCGACCTGCAGTTATTGATGCTTATGAAAAAATCAGAAGAACAAAAG
ATGATGAATTTATTAAACGTTTTGCATCAATGGATGAAGCACAGAAAGAAGAAATGAAAC
GTGAACGTCGTAGAATACAAGAGCAATTGCGAAGAATCAAGAGAAATCAAGAAAAGATTA
ATGCTCAAGCTTCTGAAACACTAACAACTCTTGGTGACCGTATGGTTCATTCAAGTAGCT
CAAGTCGCGATCCTTCTGTAAGTAAAGAATCTCCATTGAAAAAGAAAGTCAAATTGAAGC
CAGATTTAAAATTGAAATGTGGTGCTTGTGGTGCTGTTGGTCATATGAGAACTAATAAAG
CTTGTCCAAAATACACGGGAATAATGCCGCCAGTTTCACCAGTTCAAGTTGCTTTAACAG
AAGAGCAAGAAGAAGAAAT
>g545.t32 Gene=g545 Length=116
MDEAQKEEMKRERRRIQEQLRRIKRNQEKINAQASETLTTLGDRMVHSSSSSRDPSVSKE
SPLKKKVKLKPDLKLKCGACGAVGHMRTNKACPKYTGIMPPVSPVQVALTEEQEEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g545.t32 | Coils | Coil | Coil | 2 | 36 | - |
| 6 | g545.t32 | MobiDBLite | mobidb-lite | consensus disorder prediction | 22 | 66 | - |
| 7 | g545.t32 | MobiDBLite | mobidb-lite | consensus disorder prediction | 30 | 57 | - |
| 3 | g545.t32 | PANTHER | PTHR13900:SF1 | TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 1 | 2 | 31 | 7.2E-22 |
| 5 | g545.t32 | PANTHER | PTHR13900 | TRANSCRIPTION INITIATION FACTOR TFIID | 2 | 31 | 7.2E-22 |
| 2 | g545.t32 | PANTHER | PTHR13900:SF1 | TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 1 | 64 | 116 | 7.2E-22 |
| 4 | g545.t32 | PANTHER | PTHR13900 | TRANSCRIPTION INITIATION FACTOR TFIID | 64 | 116 | 7.2E-22 |
| 1 | g545.t32 | Pfam | PF15288 | Zinc knuckle | 74 | 114 | 7.6E-12 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g545/g545.t32; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g545.t32.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.
