General information for g5974.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Immunoglobulin-binding protein 1.
Parent gene
- The parent gene g5974 is located on chr_2: 13119631..13120548 (- 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 | g5974 | g5974.t6 | TTS | g5974.t6 | 13118287 | 13118287 |
| chr_2 | g5974 | g5974.t6 | isoform | g5974.t6 | 13118471 | 13119631 |
| chr_2 | g5974 | g5974.t6 | exon | g5974.t6.exon1 | 13118471 | 13119400 |
| chr_2 | g5974 | g5974.t6 | cds | g5974.t6.CDS1 | 13118471 | 13119391 |
| chr_2 | g5974 | g5974.t6 | exon | g5974.t6.exon2 | 13119529 | 13119631 |
| chr_2 | g5974 | g5974.t6 | TSS | g5974.t6 | 13119601 | 13119601 |
Sequences
>g5974.t6 Gene=g5974 Length=1033
ATGGAAGAAATAAAGTTACAAGAATTATTTAGTGATGCATATAAATTATTTGAAACCTTT
GATACACGTGACGATCCCACCAATAGCCCAGAATTTCAAGTAATGTATTCGAATGTTGGA
AGACTCAACTCGTCTAGTGAATTTGAATGGAATGTTTAGCAAAAATGAATCGCATGAAGA
GATAGCCACAAATAATCTCAAATATTTGCTGCTGCCTTTTCTACTCGCACAATCGACTTT
GAAATTAACTAATGTACAGGATCGCAAAAATGTCGTGGATGTTGCAAAAATATATTTCGA
TGATTTTCTCAAACGTTGTGAGGAATATGGATTATGTGAGAGAAGCACGACTGCCGTTTC
AAAAAATCAAGATATTATTTTACGCGATGAAATACAGAAATTAACTCAAATGGCTCAACA
AAGAAACCAAAAACTACAGAAATATCAACAGAAAAAGGAACTGAAGGATCAAATTAAACA
ACTTAAAATTGCAATGGAAAGGGATGATTCTGACGAAGACACAAAAAGAAATTTTTACTT
GAAACTTATCAAATCATGCGTATGGGAGACACAAGATGAATTATCGACATTGGAACAAGA
GTGTGAAATTCTCGAACATATCGCGAAATTAAAGGAACATGACTCAGAATTTAGACGAGA
ACATGAATCAACTTCTAAAAAGCCTCATCATTCACAAGTCGTTCCATTAAAGCCAATTAT
TATTACAAAAGATCAATTGCAAAAAGCGGTTTACGGTGCTGGTTATCCATCTTTACCGAC
ATATACTATTGAAGAATTTTATGATCAGCGTGTAGCAGCAGGCATTTTCCCAAATGCTGA
GCAAGTTGCTAAACAAAATTCATTACAAGGACGTTGCGATATTGATCAAGAGGCGGAGCA
AGCAAAAGAAGAAGAAGAAAAGGAACAAAAAATGGAGCAAGATGATCCCGAATTATTACA
ACGTGCAAGAAATATGGATGAATATAAAGATGATCATCGTCGCGGTTACGGAAATCGCTA
TAATAGAAGTTAA
>g5974.t6 Gene=g5974 Length=306
MLEDSTRLVNLNGMFSKNESHEEIATNNLKYLLLPFLLAQSTLKLTNVQDRKNVVDVAKI
YFDDFLKRCEEYGLCERSTTAVSKNQDIILRDEIQKLTQMAQQRNQKLQKYQQKKELKDQ
IKQLKIAMERDDSDEDTKRNFYLKLIKSCVWETQDELSTLEQECEILEHIAKLKEHDSEF
RREHESTSKKPHHSQVVPLKPIIITKDQLQKAVYGAGYPSLPTYTIEEFYDQRVAAGIFP
NAEQVAKQNSLQGRCDIDQEAEQAKEEEEKEQKMEQDDPELLQRARNMDEYKDDHRRGYG
NRYNRS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g5974.t6 | Coils | Coil | Coil | 94 | 134 | - |
| 5 | g5974.t6 | Coils | Coil | Coil | 257 | 278 | - |
| 4 | g5974.t6 | Gene3D | G3DSA:1.25.40.540 | - | 1 | 182 | 3.2E-50 |
| 3 | g5974.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 261 | 306 | - |
| 2 | g5974.t6 | PANTHER | PTHR10933 | IMMUNOGLOBULIN-BINDING PROTEIN 1 | 2 | 305 | 4.1E-73 |
| 1 | g5974.t6 | Pfam | PF04177 | TAP42-like family | 2 | 296 | 2.2E-71 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5974/g5974.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5974.t6.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0009966 | regulation of signal transduction | BP |
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