Gene loci information

Transcript annotation

  • This transcript has been annotated as Mediator of RNA polymerase II transcription subunit 24.

Parent gene

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 g9718 g9718.t1 TSS g9718.t1 4785973 4785973
chr_1 g9718 g9718.t1 isoform g9718.t1 4786082 4789503
chr_1 g9718 g9718.t1 exon g9718.t1.exon1 4786082 4786130
chr_1 g9718 g9718.t1 cds g9718.t1.CDS1 4786082 4786130
chr_1 g9718 g9718.t1 exon g9718.t1.exon2 4786522 4787436
chr_1 g9718 g9718.t1 cds g9718.t1.CDS2 4786522 4787436
chr_1 g9718 g9718.t1 exon g9718.t1.exon3 4787498 4788857
chr_1 g9718 g9718.t1 cds g9718.t1.CDS3 4787498 4788857
chr_1 g9718 g9718.t1 exon g9718.t1.exon4 4788917 4789372
chr_1 g9718 g9718.t1 cds g9718.t1.CDS4 4788917 4789372
chr_1 g9718 g9718.t1 exon g9718.t1.exon5 4789428 4789503
chr_1 g9718 g9718.t1 cds g9718.t1.CDS5 4789428 4789503
chr_1 g9718 g9718.t1 TTS g9718.t1 4789602 4789602

Sequences

>g9718.t1 Gene=g9718 Length=2856
ATGGATATTAAAAATAGACAGCAAAACATTCAAAAAATTCTTTTAAGAGCCTTTAGAGAA
AGATGGCCAGAATATCAATTTGGAATAAAAATCAAACAAGCTCTTCCATTAGCACTTCCA
GCAGACGCATATAATCTCACAGAAGTTTTATTGGATTTGAGTTTAATAGGAATTGGTGCA
AATAAACTTTTTCTCTCATATTTGAAGCATTCACTTCATTCTCATCTGATTAGTTATTCA
GCAGTAATTAAAAGAATAACTAAATATTCACAATATGAACGTTATTTCTGTCTCATTGCC
TTATTGGAATTTTTAATAAATATATCTGATACATGCTGTTGTAGAACAAAACCAGAAGAA
TCTTCTCTTATGAATGCTATTTTATCACTCGTTCATTGGCTTATTGAACTCAGTGAAAAG
ATATTTTTGAAAATAATGGAACAAAATAACATACCTACACATGAACAAAAGGTCTGTCTT
GAGAGAATCACCACACTCAACAATCGTATTGTCAATAATCAATTTTTAATGGGCATTATT
TACTTAGCTAAACTTGAGGATCGAGAACTCTATGAGAAATGCGTTATGAGCTATAAAAGA
ATTCATAGTTTAAGCAAAGAAGATTTTATTAAAGACTTTTATCAAATGATTTTTAACAAG
CTTGATCATATGCCGATGAAGGAATTAGAACCGAGATGTGTAGAATCGATTAGTGTTTGT
CTACAGCCTTTTATTGCAATTGAGGTATTGATAAATGCTAGTGCTGATGTAAGCGTTAAT
GTTTCAAAATTATTAATGATACAAAAGCTCAAAAAGTATTCGAATGCACGACTTTACCAT
GAGATCATAAGATCATGCTTCATTACACTTTGTCATGTGAAAGATGTCAATTATCGTATT
TGGGGTGCTTTCACGCTATGCAAAGTACCTTTGATTTTAAAACAACTTCATTTACAAGCT
AAAAATGTAGACGAGAAGCTAGACTATTCAGAAGACGTTGTGAAAGCTTTTGAGATGCTA
CTTGAATGTACACCAATTTTAGATCTGCTTGACACGACTTTTGCTTGTAATTCAATTGAA
TGCATATTAGTTGAGTTGAGAAAACAAAACTTGGTTAATGATGATATCATGAAAAAACTT
GTTGATAGGAGAATTTCTTCAATGGGAAAATTGGAAAAGTTCCAAATTTCGTCAACCTCA
CCTCCAATTGATAAATATGTAGCAACAATAGAACCAACACTCACAGCACTTATACAATCG
CTTTGTGAGCCTATCAAACCTGAATTTTTGAATGTTCTTAATACACTAGTTATTGATAAT
CGAGCATTTTTGCTTTATTCAGTTGCTGCTGTAAAAGGAATTCATCGAAAAATGATAAGT
GGGCTGATTAAATGTAATGAGTCATGCAAAGAAATTTCTGGTGAAGCAGCAAAATCAAAA
CAAAATATAATTTTCCGTTCCAATGCATTTGATGTGACATTTATTATGCTATTCTCAATC
ATGCAAAAATGTGGTGGCATAGATAAATTTCCTGAAAAGAGCAATGACTATTTTTTCGAA
AAGTGGATTCGTGATGGATATATCGATTTACAAAGTAAACCTAGATCTCCATTAAGTGTC
GTTAAAATGAGTGATTCTAGACTTGAAGAACTTATTGCTTACTTTAATGATATCAATCAA
CAACCATCACCACCAATTTCAAATAAATTGAGTGAAATATGTTGGAGCATTCCTTCTTTA
TTATATAACTGCATCATTGCTTGGGAAAAAGATATGGTCAAGCCAGCAGCTGTTAAAAAT
ATTATTGACAATATGCGCTCAAAGAACTGTTGCTTTGCTATTGTTGCTGCATCTTGGCTC
TGTGCTTATATGAAAATTCTCAAAGATGATGAACTAGCTAAACCAAAAGTTATGTTGCAA
CAGTTAATGAATCCATTAGATGAATCTATAATGAAGCAAGAAACTTTCAGTGAACGTTTT
CATCTTACACAGGAAATTATTATGAAATTATCACGTTCAGTACTTGATACAAAAAAAGCA
ACAAACAATAGCAATGATTCATTATTCAGTGATCAATGGAAAGATATAACTACGAAAAAA
TGGCTGTCGTATGAAGTTGCTATAAATTTAGATGAGATTCTTAAATCATGCGGATCATTT
TGGATAATGAAGAATCTTGTTGATGAAATAATGCACACAAAATTCATAAAAGATATGGAA
AATACATTAGATATTGCATTTGCAATAATGCATTTGAATATTGAATCATGCACTGAAACT
CTCTTAAAAGACATTCTCATTTCAATGCTCTTCAATAAAAATCAAATGTCAAAAATAACG
AATCCACAATCAAAAGCTTTAGCCAAATTATCAATTTATGGTATTCTTGCGACAATTGAA
AGTGCTGAAAGTTCGTCACAAAAGAAACGTCCACGTGAAGATGATGATTTGAGTCAAGCA
GCAAAAATGAGAAAAACAGGCATCGATCAAGCAGTTTCAATTGAGTCAACACAAAACGAT
AAAGACCAATCATCACAGCAATTGAAAGATTCATTAAGACATTCACTTCAAGAGCTTTTT
AAAGTATTTCATCAGCAAGTTGTCACTGATGATGAACTGTCTCCAAAAATCAATTTCATC
TTTCAATTCTTCTCCTTGCTTGTTCAATTTGAGAAAAGTGTGAAAATAAAAGCTATACTG
AGACTCATTCCTAATGGACTGGTGATGAATCTTCTCAAATTAGTGCATCAAGACGATTTG
ACTTATGGATTTATTTTGAGATTATATGATTTATCAGTATCATCAGGACGTTTATCTGCA
ATATCAGATTTGTGTCTTTTGCAAAATTCAAAATGA

>g9718.t1 Gene=g9718 Length=951
MDIKNRQQNIQKILLRAFRERWPEYQFGIKIKQALPLALPADAYNLTEVLLDLSLIGIGA
NKLFLSYLKHSLHSHLISYSAVIKRITKYSQYERYFCLIALLEFLINISDTCCCRTKPEE
SSLMNAILSLVHWLIELSEKIFLKIMEQNNIPTHEQKVCLERITTLNNRIVNNQFLMGII
YLAKLEDRELYEKCVMSYKRIHSLSKEDFIKDFYQMIFNKLDHMPMKELEPRCVESISVC
LQPFIAIEVLINASADVSVNVSKLLMIQKLKKYSNARLYHEIIRSCFITLCHVKDVNYRI
WGAFTLCKVPLILKQLHLQAKNVDEKLDYSEDVVKAFEMLLECTPILDLLDTTFACNSIE
CILVELRKQNLVNDDIMKKLVDRRISSMGKLEKFQISSTSPPIDKYVATIEPTLTALIQS
LCEPIKPEFLNVLNTLVIDNRAFLLYSVAAVKGIHRKMISGLIKCNESCKEISGEAAKSK
QNIIFRSNAFDVTFIMLFSIMQKCGGIDKFPEKSNDYFFEKWIRDGYIDLQSKPRSPLSV
VKMSDSRLEELIAYFNDINQQPSPPISNKLSEICWSIPSLLYNCIIAWEKDMVKPAAVKN
IIDNMRSKNCCFAIVAASWLCAYMKILKDDELAKPKVMLQQLMNPLDESIMKQETFSERF
HLTQEIIMKLSRSVLDTKKATNNSNDSLFSDQWKDITTKKWLSYEVAINLDEILKSCGSF
WIMKNLVDEIMHTKFIKDMENTLDIAFAIMHLNIESCTETLLKDILISMLFNKNQMSKIT
NPQSKALAKLSIYGILATIESAESSSQKKRPREDDDLSQAAKMRKTGIDQAVSIESTQND
KDQSSQQLKDSLRHSLQELFKVFHQQVVTDDELSPKINFIFQFFSLLVQFEKSVKIKAIL
RLIPNGLVMNLLKLVHQDDLTYGFILRLYDLSVSSGRLSAISDLCLLQNSK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g9718.t1 PANTHER PTHR12898 MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 24 5 945 0
1 g9718.t1 Pfam PF11277 Mediator complex subunit 24 N-terminal 8 945 0

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016592 mediator complex CC

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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.

Raw TPM values