Gene loci information

Transcript annotation

  • This transcript has been annotated as Mediator of RNA polymerase II transcription subunit 16.

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_3 g3669 g3669.t1 TSS g3669.t1 27302865 27302865
chr_3 g3669 g3669.t1 isoform g3669.t1 27303737 27306438
chr_3 g3669 g3669.t1 exon g3669.t1.exon1 27303737 27303872
chr_3 g3669 g3669.t1 cds g3669.t1.CDS1 27303737 27303872
chr_3 g3669 g3669.t1 exon g3669.t1.exon2 27303933 27304258
chr_3 g3669 g3669.t1 cds g3669.t1.CDS2 27303933 27304258
chr_3 g3669 g3669.t1 exon g3669.t1.exon3 27304347 27305535
chr_3 g3669 g3669.t1 cds g3669.t1.CDS3 27304347 27305535
chr_3 g3669 g3669.t1 exon g3669.t1.exon4 27305600 27305855
chr_3 g3669 g3669.t1 cds g3669.t1.CDS4 27305600 27305855
chr_3 g3669 g3669.t1 exon g3669.t1.exon5 27305919 27306438
chr_3 g3669 g3669.t1 cds g3669.t1.CDS5 27305919 27306438
chr_3 g3669 g3669.t1 TTS g3669.t1 27306605 27306605

Sequences

>g3669.t1 Gene=g3669 Length=2427
ATGGAACCATTCTTTAATTTACAACACAACAAGATTGTGATGAGAAAAGATGATGTTTTT
GGACGATTTGAAAACTTTTGTAAAGTTTCTTCTTCAAACCTAATCGCTTTTACATCTGAA
ACCAACATTCAAACAGGAGAAAAAGGATATTTTATTTATGTTTTTGATTTAAACATTCCA
TGGAGTTGTTTTCAAGTTGCTTTTAAGAATTCAAAAGTAACAGTTTTACAGTGGGATCAA
AGTGGATCATACCTCCTAGTTGGCAGTGTTGGAAATGTCTCTATATACGCTCAAAAAAAT
AATTTAATAGATCAATGGCATGAAATTTATGCTGTTTCTTTTCAAAACGAAAATATTATT
TCTGCAAAGTTCTTTTTCAATGGCATTAAATATAAATATCAACCAGAACAAGTGCTTTAT
TCAGAAAAATATCAAAAATCAAAAAGTCAGCCCACTGTTAAGGGATTTGGTAGTTCTGCA
TGCTTTGGATGTATAATAATTACATCTACTGGCTTAATTGGTGCATTCTCATTTGATATT
AACACATCTAGCACAACAAATAACAACGTAGAGCCTTGTCGTTTTACGAAAAATCTTGGA
CAAAATAGATGTATTTATACAAACGCTGATATTTCCTTCAAAAATGGACAATTTTATGTT
GCTGCCACAAACAATGGCCAAAAAAATCCTATGATACAATGCTTTAGAGTGCATATAGAA
AAAGTAGATGAAGAGTTGATTATTAACAGCAAGCCACTTCCAAGCTTTTTTGTCAATGAA
AATGCTTCTATTAAAGACATGATTGATCTTAAACTTTATAAACTAAAATGGATAAACCAA
GAAGATGCAGATTCACTTATAATTTCTTCAAATCACATGACAGGAAGTATAGTTGAAATA
TGGACTTTAAAAGAGGAATCAACAACAGTTCATAAACTTTTTCAAACAAATAAAAGTGAA
AGTTATAAAACTCTAATGTGGGTTAATCAACCACATAATTATCGTCACAGTAGAAAAGTT
CTCGACGTAATTACAACAAAAATTCAATTTGGGCCTAACTTTTATTTTTTCATTGCTTAT
CAAGACAGTTCAATTCATTGTCTCAATCGTGATGGACTTAAACGTGTTTCAATTACAAAT
TTAAATTTTAGTGCATCTGCACTTGAACATCAAACAAAAATTATAAAAATGACTTCAAAA
ATGGCTGCTTTGGATATTACTTTTATGGGAAACTTATTATTTGCAATAGATTCGATTGGT
CAAGTTGCATGCTACAAAATTAATTTTGATCACATTATGATGAATCTTGTACAAGCTACA
AATATAATTGAATATTGTATGGTTAGTGGAATTGATAGTCTTGATTCATTATTAATGCTT
AAAACAACTCAACCACCATCGATTATCGATGCAGTTTTAGATCGTCTAACTGAAAATTTT
TACCGTCAAACAAATTATATCACACAATATTATTACATTAAATTTTTGACACTGAAGATT
AATCTTCATCGCATGACAATTTCTGGACAAAATAAGGCACACGATTTAATTTGCTTACTT
AAACTCATATCAATTTCAACCGCTTTTAAATCTTTATTAAGACCATCAGATTTAATGACG
ACAAAAAATGGACCTGCTGAAAATTTAGCAATGATTCTCTCTGATACTACAGCAAATTCT
GATGTTGATAAAGTTTTGTTGAATTTAGAACCAAAAGATTTTACAATAGAGCCTGTTGTA
CTTTCAAGTTTACAACAATTAATACAATTTGTAGCTGACCTTGCTCTCAACATTTTAGTA
AAGTTACCTGAGGGTAGAACATTTTTAAACAATACAAACAAAACAACGGGTGATTTGAGT
GATTTTACTGCTCTCAATACAATCAGAGAGTTACTTGTTATGATAAGAATATGGGGTTTA
TTGAGACCTAGTTGTCTGCCAGTATTTTCAAGATCAGCTGATAATCTTGATATTTTAGCT
ACTTTGTTTAAATTGCTTACTAAACTTGCACCCAGACCTGATCAACCAGATGAACAATTA
ATTGATGAATGCTGTCTTTTGCCATCACAAGTTTTGATTAATCAAGTACAACTGAATACA
CCGAAAACTTCATTATCAAGTCCTCTTTTAAACAGTTTACAATTTCCACTTCAATTAATT
CATTTTATTGAGTATGAAAATTTAGAATTCACTCCAGATTTTCATTATGTTGAAGGATGT
TTGATGAATCACGGTTTAATTGACTCAATACGTTATCTCCATCTAAATAAAAGTGGATGT
AATGGATCAATAAGACGATGTGTAAGATGTGGAGCATTTTCTATATTAAAATCATCCATG
AAACTTTCTACTGCTATGAAAGCTTGGGAAAATCGATGGGATAATTGTAATTTTTGTAGT
GGCAAATGGAAAAGCGAAAAAATTTAA

>g3669.t1 Gene=g3669 Length=808
MEPFFNLQHNKIVMRKDDVFGRFENFCKVSSSNLIAFTSETNIQTGEKGYFIYVFDLNIP
WSCFQVAFKNSKVTVLQWDQSGSYLLVGSVGNVSIYAQKNNLIDQWHEIYAVSFQNENII
SAKFFFNGIKYKYQPEQVLYSEKYQKSKSQPTVKGFGSSACFGCIIITSTGLIGAFSFDI
NTSSTTNNNVEPCRFTKNLGQNRCIYTNADISFKNGQFYVAATNNGQKNPMIQCFRVHIE
KVDEELIINSKPLPSFFVNENASIKDMIDLKLYKLKWINQEDADSLIISSNHMTGSIVEI
WTLKEESTTVHKLFQTNKSESYKTLMWVNQPHNYRHSRKVLDVITTKIQFGPNFYFFIAY
QDSSIHCLNRDGLKRVSITNLNFSASALEHQTKIIKMTSKMAALDITFMGNLLFAIDSIG
QVACYKINFDHIMMNLVQATNIIEYCMVSGIDSLDSLLMLKTTQPPSIIDAVLDRLTENF
YRQTNYITQYYYIKFLTLKINLHRMTISGQNKAHDLICLLKLISISTAFKSLLRPSDLMT
TKNGPAENLAMILSDTTANSDVDKVLLNLEPKDFTIEPVVLSSLQQLIQFVADLALNILV
KLPEGRTFLNNTNKTTGDLSDFTALNTIRELLVMIRIWGLLRPSCLPVFSRSADNLDILA
TLFKLLTKLAPRPDQPDEQLIDECCLLPSQVLINQVQLNTPKTSLSSPLLNSLQFPLQLI
HFIEYENLEFTPDFHYVEGCLMNHGLIDSIRYLHLNKSGCNGSIRRCVRCGAFSILKSSM
KLSTAMKAWENRWDNCNFCSGKWKSEKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g3669.t1 PANTHER PTHR13224 THYROID HORMONE RECEPTOR-ASSOCIATED PROTEIN-RELATED 30 806 0e+00
1 g3669.t1 Pfam PF11635 Mediator complex subunit 16 112 804 0e+00
3 g3669.t1 SUPERFAMILY SSF101908 Putative isomerase YbhE 31 430 5e-07

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