General information for g10514.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Transcription elongation regulator 1.
Parent gene
- The parent gene g10514 is located on chr_1: 10311027..10311614 (+ 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_1 | g10514 | g10514.t4 | isoform | g10514.t4 | 10307899 | 10308674 |
| chr_1 | g10514 | g10514.t4 | exon | g10514.t4.exon1 | 10307899 | 10307906 |
| chr_1 | g10514 | g10514.t4 | exon | g10514.t4.exon2 | 10307969 | 10308166 |
| chr_1 | g10514 | g10514.t4 | exon | g10514.t4.exon3 | 10308232 | 10308674 |
| chr_1 | g10514 | g10514.t4 | cds | g10514.t4.CDS1 | 10308351 | 10308674 |
| chr_1 | g10514 | g10514.t4 | TSS | g10514.t4 | NA | NA |
| chr_1 | g10514 | g10514.t4 | TTS | g10514.t4 | NA | NA |
Sequences
>g10514.t4 Gene=g10514 Length=649
TCTTATTGGACGTGCGGATGTCGATAAGCTGGTTTCAACAATACCCGACCAACTTAAAGG
AACGGTAAGCGAAAAAGAGGAGCAGGTTAGTGAAACACCTAGTAATACAGGTAAAAAGAA
TGAACCAGAGAAGATTGTTGAAGAAGAAGAAGAATCCGAAGAAGAAGATGAAGAGGTTCC
AGCAGCTAAAAAATCTAAAATTGAAGAGCAAGTTACCTCGGCACCAGTGAAAATTCAAAA
TGCACCTGCTATTCCGGAGAAAAAAGTTGATATCGTAAAAGATCCAGCAGCAGAAGCGGA
GTTGAAAGCTGCGAAAGAGAGAGCGATGGTTCCACTAGAGACCAGAGTTAAACAGTTTAA
AGAAATGTTAAAAGAAAAAGAAGTTTCAGCTTTCAGTACATGGGAAAAGGAATTACATAA
GATCGTTTTTGATCCTCGTTATTTGCTTTTAGCTAGCAAAGAACGTAAACAAGTTTTCGA
AAAATATGTGAAAGATCGAGCTGAAGATGAGAGAAGAGAAAAGCGATATAAAATGCAAAA
AAAACGAGATGATTTTAAAAAGTTGATGGAAGATGCCAATCTTCATTCGAGGTTAATTTT
TAATTTGAAATTAAATATACTAAATTCTTATTTTACTCTTTTCAATAGA
>g10514.t4 Gene=g10514 Length=108
MVPLETRVKQFKEMLKEKEVSAFSTWEKELHKIVFDPRYLLLASKERKQVFEKYVKDRAE
DERREKRYKMQKKRDDFKKLMEDANLHSRLIFNLKLNILNSYFTLFNR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10514.t4 | Coils | Coil | Coil | 56 | 76 | - |
| 5 | g10514.t4 | Gene3D | G3DSA:1.10.10.440 | - | 1 | 69 | 2.9E-24 |
| 2 | g10514.t4 | PANTHER | PTHR15377 | TRANSCRIPTION ELONGATION REGULATOR 1 | 2 | 92 | 1.6E-40 |
| 1 | g10514.t4 | Pfam | PF01846 | FF domain | 9 | 54 | 3.0E-13 |
| 7 | g10514.t4 | ProSiteProfiles | PS51676 | FF domain profile. | 4 | 57 | 11.831 |
| 4 | g10514.t4 | SMART | SM00441 | FF_2 | 4 | 57 | 1.4E-13 |
| 3 | g10514.t4 | SUPERFAMILY | SSF81698 | FF domain | 4 | 63 | 1.83E-16 |
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.
