General information for g6946.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Periodic tryptophan protein 2-like protein.
Parent gene
- The parent gene g6946 is located on chr_2: 20095348..20096229 (+ 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 | g6946 | g6946.t4 | isoform | g6946.t4 | 20095348 | 20096229 |
| chr_2 | g6946 | g6946.t4 | exon | g6946.t4.exon1 | 20095348 | 20096014 |
| chr_2 | g6946 | g6946.t4 | cds | g6946.t4.CDS1 | 20095398 | 20096014 |
| chr_2 | g6946 | g6946.t4 | exon | g6946.t4.exon2 | 20096076 | 20096229 |
| chr_2 | g6946 | g6946.t4 | cds | g6946.t4.CDS2 | 20096076 | 20096229 |
| chr_2 | g6946 | g6946.t4 | TTS | g6946.t4 | 20096303 | 20096303 |
| chr_2 | g6946 | g6946.t4 | TSS | g6946.t4 | NA | NA |
Sequences
>g6946.t4 Gene=g6946 Length=821
GTTTGTTGCTAAAGAAATTCGAAATTACGCAAAATCTGAGTTTAGATGGAATGTTGGAAT
TCATTAATCGAAGAAATATGACCGAGTTTGGTAACATAGCATTAATTGAGGAGAGAGATA
AACTTGAAGGCGGAAATATCAAAATCAAATTACCTGGTACACAGAAAAATGACATAGCTT
CAAGAAATTTTCGACCAGAAGTGGGTGTATCAAGTTTAAAGTTCTCTCCAAATGGACAGC
AGTGGTCTGCTGCGACTACAGAAGGACTTTTAATTTATTCTCTCGATAAAGGCATTGTTT
TTGATCCATTTCAAATGTCAATTGAAGTTACTCCTAAAGCAGCAAGAGAATTGATACATG
AACAAGAGTACTCTTCTGCTCTCATCATGGCACTAAAATTAAATGAAGTTAATCTCATAC
AAGAGATTATTGAACAAATACCGCACACACAAATCGATTTAGTGTTGGATGCTATACCTG
AAACTTTCGTTCGTCGTATAGCAGATTTTATTGCAAAAATTCTCAACTCACACCACATAG
AATTTTATTTAAAATGGACCTGTAGTTTGTTGACAAAATTTGGCCAGAAAAATGAATTGA
TTGATTCACAAATTCTCATAAATCTTCATCAGAATTTAATTCGCAAATACGAAAGCTTAA
ACCAAATATGTGAATTTAATAAATATACTATTCGAGTAATCAAAAAAATGTCAAAAGTAA
AAATCGACGAGGAATGTAATGATGACGAAATGTTGCTTATCAATAATAATAATTCAGAAG
AAATGGTAAGTGATATTAATGAAGATACATCAGAAGAATAA
>g6946.t4 Gene=g6946 Length=256
MLEFINRRNMTEFGNIALIEERDKLEGGNIKIKLPGTQKNDIASRNFRPEVGVSSLKFSP
NGQQWSAATTEGLLIYSLDKGIVFDPFQMSIEVTPKAARELIHEQEYSSALIMALKLNEV
NLIQEIIEQIPHTQIDLVLDAIPETFVRRIADFIAKILNSHHIEFYLKWTCSLLTKFGQK
NELIDSQILINLHQNLIRKYESLNQICEFNKYTIRVIKKMSKVKIDEECNDDEMLLINNN
NSEEMVSDINEDTSEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g6946.t4 | PANTHER | PTHR19858 | WD40 REPEAT PROTEIN | 1 | 223 | 0 |
| 1 | g6946.t4 | Pfam | PF04003 | Dip2/Utp12 Family | 118 | 218 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
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.
