General information for g11494.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Mediator of RNA polymerase II transcription subunit 13.
Parent gene
- The parent gene g11494 is located on chr_1: 16615827..16625383 (+ 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 | g11494 | g11494.t2 | isoform | g11494.t2 | 16614409 | 16618284 |
| chr_1 | g11494 | g11494.t2 | exon | g11494.t2.exon1 | 16614409 | 16614878 |
| chr_1 | g11494 | g11494.t2 | TSS | g11494.t2 | 16614410 | 16614410 |
| chr_1 | g11494 | g11494.t2 | exon | g11494.t2.exon2 | 16615720 | 16615892 |
| chr_1 | g11494 | g11494.t2 | cds | g11494.t2.CDS1 | 16615827 | 16615892 |
| chr_1 | g11494 | g11494.t2 | exon | g11494.t2.exon3 | 16617117 | 16617450 |
| chr_1 | g11494 | g11494.t2 | cds | g11494.t2.CDS2 | 16617117 | 16617450 |
| chr_1 | g11494 | g11494.t2 | exon | g11494.t2.exon4 | 16617507 | 16617669 |
| chr_1 | g11494 | g11494.t2 | cds | g11494.t2.CDS3 | 16617507 | 16617669 |
| chr_1 | g11494 | g11494.t2 | exon | g11494.t2.exon5 | 16617893 | 16618284 |
| chr_1 | g11494 | g11494.t2 | cds | g11494.t2.CDS4 | 16617893 | 16618283 |
| chr_1 | g11494 | g11494.t2 | TTS | g11494.t2 | NA | NA |
Sequences
>g11494.t2 Gene=g11494 Length=1532
GCAGAAACTTCGCATCAAAGAGAGAGAAAAGAGAAAAAGAATTACCGTGAACTCAATATT
TAATTAAAAATTGTATTAAAATCGAAATTAAACTTGAATTTATTGAAAATATTATTCATA
TACATGTTTAAAACAAAAAATTAATGTTATTAAGTTCAAAAATCGTTTGCGGAATCAGAA
AATTTGAGTAAAATATTTGTGAAAATCGCCATTGATCCGAAAAAAGCTGAAAAAACTACT
ACAGTTATAGAAAAACATACACATTTTGAATTCTCGCAAAATTATAGGGAAAAAACCCAA
TAATTTCTAAGTTATTTTTTTTTTCAAAAAACATCCATTAAACCTAACTTAGTGCAATTG
TGCTTAATTAGTAGAAACCTTGAAATTTTGTTTCTACTAAACAAAATGGATATCTGTATA
TAAAACATGTAAAAATCTATAATATCATGGAAGAAGTGCATGTAAGCTAAATTTAATAGT
TATGCAAAACTGTAAAGTGATTAGTTCAATTGCAAAATAATCAGAGGATTCTCTTCTTAT
TTGTGTGAAAGTTGTAAAAAATGATATTACAACAGCCATGACGCAAAACCACCAAACTAA
CGGCGCAAGTTTGGAAGATTGCCACACAAACTTTTTTGCTTTGGCTGATTTATGCGGAAT
AAAATGGAAAAAGTTAGTTTTAAGCGAGAGACCGCATGCAACAGCAGATTCAGATCCATT
AGATGATCCAGTACTTAAATCTTATACAAAATGTTTAGCTAAGGATATTCTGTGCGTGTG
GCGTCGAGTTTCACAGCACAAAAATGATTTAGATCAAACAGGTGGCCTTGGGCTTGGGAT
GTTTGATATTAGTCAAAATATGACTGTAACTCATCCACCACTATCGTTAACAGCAGCAAA
AGAATTATGGATATTTTGGTACGGAGAAGAGCCAGATCTAATTGATTTAGTGTCACCTGA
ACTTTTAAAATCATCAGATTTAGGAGAACAAGGTTCATGGGAGAGCGGCTTATCATATGA
ATGTAGATCTCTGCTGTTTAAAGCACTTCATAATTTAATAGAAAGATGCTTACTTTCGAG
GGAAATAATTCGATTAGGAAAATGGTTTGTGCAACCAGTCAATAATGAAGATGAAAACAG
TACTGCTCATTTGTCATTTTCCTTTGCGTTCTTCGTACATGGCGATAGTACAGTATGTGC
ATCTATGGACATACGGGAGCATCCTCCAGTTCGTCATTTGACTGAGGATGATTTAAATAA
CGTAATTAAAAGTTTAGATCAAAATGATGATAGCTGTTCTCTTGATGGAACAGAACAAAA
AGACGAAATTAATATAAATAATAAAGCTAATATGCAATCGGTAATTTTGGCACCGTTTGG
CCTATCAGCAGTATTATCTAATACAAAAAATGAAAATGTTGATCAGTATGCTGAGAAAAT
TATCAACGATTGGAATACATTTTATCCAATGAAAAAGCTCGACAATGACACCTCATCTTC
AAAGTTACCTCAACTTGTGGAAGTAATTTCAG
>g11494.t2 Gene=g11494 Length=318
MTQNHQTNGASLEDCHTNFFALADLCGIKWKKLVLSERPHATADSDPLDDPVLKSYTKCL
AKDILCVWRRVSQHKNDLDQTGGLGLGMFDISQNMTVTHPPLSLTAAKELWIFWYGEEPD
LIDLVSPELLKSSDLGEQGSWESGLSYECRSLLFKALHNLIERCLLSREIIRLGKWFVQP
VNNEDENSTAHLSFSFAFFVHGDSTVCASMDIREHPPVRHLTEDDLNNVIKSLDQNDDSC
SLDGTEQKDEININNKANMQSVILAPFGLSAVLSNTKNENVDQYAEKIINDWNTFYPMKK
LDNDTSSSKLPQLVEVIS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g11494.t2 | PANTHER | PTHR10791:SF181 | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 13 | 16 | 315 | 0 |
| 3 | g11494.t2 | PANTHER | PTHR10791 | RAG1-ACTIVATING PROTEIN 1 | 16 | 315 | 0 |
| 1 | g11494.t2 | Pfam | PF11597 | Mediator complex subunit 13 N-terminal | 11 | 280 | 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.
