Gene loci information

Transcript annotation

  • This transcript has been annotated as Enhancer of mRNA-decapping protein 4-like protein.

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 g12173 g12173.t1 TTS g12173.t1 21452036 21452036
chr_1 g12173 g12173.t1 isoform g12173.t1 21452314 21456131
chr_1 g12173 g12173.t1 exon g12173.t1.exon1 21452314 21452497
chr_1 g12173 g12173.t1 cds g12173.t1.CDS1 21452314 21452497
chr_1 g12173 g12173.t1 exon g12173.t1.exon2 21452562 21453120
chr_1 g12173 g12173.t1 cds g12173.t1.CDS2 21452562 21453120
chr_1 g12173 g12173.t1 exon g12173.t1.exon3 21453180 21453472
chr_1 g12173 g12173.t1 cds g12173.t1.CDS3 21453180 21453472
chr_1 g12173 g12173.t1 exon g12173.t1.exon4 21453528 21453705
chr_1 g12173 g12173.t1 cds g12173.t1.CDS4 21453528 21453705
chr_1 g12173 g12173.t1 exon g12173.t1.exon5 21453768 21453936
chr_1 g12173 g12173.t1 cds g12173.t1.CDS5 21453768 21453936
chr_1 g12173 g12173.t1 exon g12173.t1.exon6 21454019 21456011
chr_1 g12173 g12173.t1 cds g12173.t1.CDS6 21454019 21456011
chr_1 g12173 g12173.t1 exon g12173.t1.exon7 21456097 21456131
chr_1 g12173 g12173.t1 cds g12173.t1.CDS7 21456097 21456131
chr_1 g12173 g12173.t1 TSS g12173.t1 21456266 21456266

Sequences

>g12173.t1 Gene=g12173 Length=3411
ATGGATAAGAAAAATAATCAGATTTCATCAACAATAGCATTCAATAGCGAAGACGATAAA
CAACATTGCTATGAAACAAATGGTGCTAATATTACCGTTCAAGTACAACCGCGATTAAAT
TCGTCGAGTCATGGAAGTTCAATGGTGAAATTTAAGAAACTATACGGTTATAAATGGGAA
GAAAAAGATTATCCTGGCCGTTTGGTTGCAATTCACAAAGACGGAAAAATTCTTGCATAT
TCAATTAGTGTAAATGGTCGAGGCTTAGTGCGAGTTATTCATTTGGGAATTGGAAGCATG
CGAATGCTTCTTAAAGGTCTCTCAAAAGAATGTCTCGATCTTGAATTTGCTCATTGTAGC
CGGCAAATAATAATTGGCTTTATAGAAGAAACAGCTGTTCATGTGTATAAGATTGAAGTG
AATGAAAAGACTGAAAATTTAAGCAGTGTTTTTCTGCTAAAAATTGAGAGTCCTCTTGTC
AATCATGTTCCTGCAATGGATAAAATTAGATTCTGTCCCTTTGTTCCAGAAGAAAATGAT
ATCGAAGACGAATTTTCCGTGCTTTTGTTTGTATGGGTTAGAGGGAATAAATTTGAATGT
TATTCAACAAAAACGATTCTTGACGCATATGGTCCGTGTTCGAAGAATGCAGATGAAATT
ACTGAAGGCATTGTTAAGAGCTATGAAGAGGATCGTGCAATGATAACAAGTGTGACTTTT
TCACCAGATGGTACAACGCTTGCGATTGGTACACAAGATGGTAGCATTCGTTTCTATCAA
ATTTATTTTCATGAAGAAACGCCTCGTTGTTTGCACACTTGGAATCCACATGATTCCCAA
GCAATAAGTGACTTTTTTTTCTTGGACAATCATACACAACCGATTGCTGGAAGTACACTT
TGGAAATATGTTGTTACTCTCTCAAACAACAACACTGAAATTAAAGTATCAAGTTGTGAT
TCATGGGAAATACTTCAAACTATTCAATTTAAGTCTGCCGATGGTCAACCACTTTCATTC
AAAGCTGAAATCGATCGTACATCATCCTATCTTATTCTTAGTGATATGAAAAATCGACAG
TTATACATTTTACAAATTCTTAAAGAAAATCAATTGAGTCAGAATAATGGTGATGAACAA
AGTAATGATGGCAACAATGGCGGTGGATTCGCACGAGTTTTCGTTAAATCAATTGCTGAA
TTTCATTTATCTTCAACTATTCTAAGTTATATCATATCAAACGCATCAATTCGTCGTTAC
AAATGTGCATTGAGTGAAAATTATTTAATCGATGAACTAGAAGATTATGATGAAGAAAAC
AGTTCGATTTTCTGTGTTGCACTCAAGTTATTCACAATTTTCCCTGACAGTGTTCAAGAG
TGTCAAATTTTGTATCAAACGCCATTAAATCAAAGTGCAGAAGTGTTAAAAACTGAAGTT
ACTAGTACTTCGTCTTCTTCAGAACCTAAATCACCAGCACCATCAGCTCTTCCTTTGTTA
AATGTTGCAAGTACTGGTATTGAAATTATGAAAAATGATTTAGCTCTAAGAACGCCGCCA
CAAAAGGCATCACAATTAAATCTCATAACACCTGATTCATTCAGTTCACCTGTAGAAAAG
CCTAAAGAAGTTAGCCAAGAAGTTTTAAGCACAATTTTCATGCTCGCAAAAAACAATCAA
GCATCTGGTGTTTCACATGAGGCTGTTCTCAAATTGCCAAATTGTGCATTAATTGAAGAA
GAGAAAATATTTCAACAGAAAATTGCTGCATCTGAAACAGTTCCATCATCATCTATTGAA
CAGCTACCATTAAATTTAAAATCTACTTCTGGTGGTTCGAGTCCAAGTCGTGAAGTTCGA
GATATAATGTTGCAAGCAGACTCGAATAATGAAGATTATTATCCTCCAGATGAAGAAGAT
GATATTGATATTGATGAATCCGAAGATAAAGCTGTTTTGAATGCTTTAAATGCATTAGGA
GTAGCACATTTTAAAAATATCGATGATGATGATGATGACGAAGAAGAGGATGATGGAAAT
GAAGAAGATGATGAAGATGACGAACCTGATGTTAAAGTGACAAAATCAAAGAAACCAGAC
TGGCCTCAAGCGCCACAATTTATTGATTCATCAAATGCTGCAAGTGCAACTGCAAAACAA
GTAGAAACTCTCTCTAATAGAATGAATCAAATGATTGAAATAATGGAGCAACAATCTCGG
TATATTGCGGAATTGAGGAGTGACATTTATAGTTTGAAATCACAGACAAATGCTGAAGCT
GTGATGTCTCAAAATTTAATAACTCGAGTTGAAGAAAGTGGGATAAAGGCAGTTGATCAA
AATTATTCTAAAGTTGAAACTCTTTTATTAAATAGAGAAAAACACAATCAACGTGAACTT
ACTGAATCAATTATGAAATTGTTTCAACAACTTTCTCGTAATCAACTTGCAACAACAGAA
TCGGCTGTAAAAGAAAGTGTTAAATCGGTTTGTGGAAATAAAGCTTTTGTTGATGGCGTT
AGTCAAGCAATGTTAGCTGGAACACAAAAATCATTAGAGCAAATATTCAGAAAAAGTCTT
GAGGACATAATGATTCCATCATATGAGAAAATTACACATGAAATGTTCCAAGAAATGGGA
AAAGTCTTTACACAAGGAACCAAAGACTATACTCAAGCGTTTGATGCTTATATCAAACAA
TATGGAGCAGTTCATTATCAAATGACTCAATTTGGTGATACAATTCGACAAATTCCACAG
CAAGTGAAGCAAGAAGTTAAGAGCACTTATGATGCTAATGTAATTCCTGTGTTGAATTCA
AAATTATCACATCTAAAACAACAACTCGATGTTTTCCAAACGAAAATTACACAAGATATC
AGAGAATTAGTTAAAAAAGAAATTCAAAATGGTTTTGAACAGCAAAGAGCATCACTCGAA
GATTCAGTATTATCAGCTGTCACACGTTCTCAAACAGAAACACCTGCACCTCCAACAACA
TTCGATCATCAAGAGGCAATAAAGCAATATCTTGCATTGGGAGAAGTCAATAAGGCTTTT
CATACAGCTCTTATTTCAAATGATTTATCACTTGTCGAATTTACAATTGAAAAAGCTGAT
TTCAATACTGTATTCAAACCACCACTTCAACTGGAACAAACTGTGCTTCTTTCATTGATA
CAACAAATTACTGTCGACATGAATCGCTATAGTGAAATCAAAAATCGCTATTTGAATGAA
GCAATCATCAATCTTAATATGCAAGATCCAATCACACGTGAACATTCGCCGAAAATTTTA
CGCGAATTATACAACACACTTCAAATTTACATCTCATCAAAACCGACAAATCAATTGACT
TCTAGCATCAAAATGATTATGTTGGCAGCTCAGACTATTGCAAATATGTGA

>g12173.t1 Gene=g12173 Length=1136
MDKKNNQISSTIAFNSEDDKQHCYETNGANITVQVQPRLNSSSHGSSMVKFKKLYGYKWE
EKDYPGRLVAIHKDGKILAYSISVNGRGLVRVIHLGIGSMRMLLKGLSKECLDLEFAHCS
RQIIIGFIEETAVHVYKIEVNEKTENLSSVFLLKIESPLVNHVPAMDKIRFCPFVPEEND
IEDEFSVLLFVWVRGNKFECYSTKTILDAYGPCSKNADEITEGIVKSYEEDRAMITSVTF
SPDGTTLAIGTQDGSIRFYQIYFHEETPRCLHTWNPHDSQAISDFFFLDNHTQPIAGSTL
WKYVVTLSNNNTEIKVSSCDSWEILQTIQFKSADGQPLSFKAEIDRTSSYLILSDMKNRQ
LYILQILKENQLSQNNGDEQSNDGNNGGGFARVFVKSIAEFHLSSTILSYIISNASIRRY
KCALSENYLIDELEDYDEENSSIFCVALKLFTIFPDSVQECQILYQTPLNQSAEVLKTEV
TSTSSSSEPKSPAPSALPLLNVASTGIEIMKNDLALRTPPQKASQLNLITPDSFSSPVEK
PKEVSQEVLSTIFMLAKNNQASGVSHEAVLKLPNCALIEEEKIFQQKIAASETVPSSSIE
QLPLNLKSTSGGSSPSREVRDIMLQADSNNEDYYPPDEEDDIDIDESEDKAVLNALNALG
VAHFKNIDDDDDDEEEDDGNEEDDEDDEPDVKVTKSKKPDWPQAPQFIDSSNAASATAKQ
VETLSNRMNQMIEIMEQQSRYIAELRSDIYSLKSQTNAEAVMSQNLITRVEESGIKAVDQ
NYSKVETLLLNREKHNQRELTESIMKLFQQLSRNQLATTESAVKESVKSVCGNKAFVDGV
SQAMLAGTQKSLEQIFRKSLEDIMIPSYEKITHEMFQEMGKVFTQGTKDYTQAFDAYIKQ
YGAVHYQMTQFGDTIRQIPQQVKQEVKSTYDANVIPVLNSKLSHLKQQLDVFQTKITQDI
RELVKKEIQNGFEQQRASLEDSVLSAVTRSQTETPAPPTTFDHQEAIKQYLALGEVNKAF
HTALISNDLSLVEFTIEKADFNTVFKPPLQLEQTVLLSLIQQITVDMNRYSEIKNRYLNE
AIINLNMQDPITREHSPKILRELYNTLQIYISSKPTNQLTSSIKMIMLAAQTIANM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g12173.t1 Coils Coil Coil 718 738 -
5 g12173.t1 Gene3D G3DSA:2.130.10.10 - 57 384 3.4E-16
6 g12173.t1 Gene3D G3DSA:1.10.220.100 - 1050 1136 7.9E-27
11 g12173.t1 MobiDBLite mobidb-lite consensus disorder prediction 664 714 -
10 g12173.t1 MobiDBLite mobidb-lite consensus disorder prediction 668 689 -
2 g12173.t1 PANTHER PTHR15598 ENHANCER OF MRNA-DECAPPING PROTEIN 4 29 1133 2.7E-104
3 g12173.t1 PANTHER PTHR15598:SF5 ENHANCER OF MRNA-DECAPPING PROTEIN 4 29 1133 2.7E-104
1 g12173.t1 Pfam PF16529 WD40 region of Ge1, enhancer of mRNA-decapping protein 45 370 1.2E-103
12 g12173.t1 ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 228 269 9.573
13 g12173.t1 ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 228 261 10.174
8 g12173.t1 SMART SM00320 WD40_4 221 260 2.4E-5
9 g12173.t1 SMART SM00320 WD40_4 267 318 470.0
4 g12173.t1 SUPERFAMILY SSF50978 WD40 repeat-like 63 369 3.05E-18

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:0005515 protein binding MF

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