Gene loci information

Transcript annotation

  • This transcript has been annotated as E3 ubiquitin-protein ligase TRIM37.

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_2 g6128 g6128.t1 TSS g6128.t1 14402377 14402377
chr_2 g6128 g6128.t1 isoform g6128.t1 14402584 14409099
chr_2 g6128 g6128.t1 exon g6128.t1.exon1 14402584 14402664
chr_2 g6128 g6128.t1 cds g6128.t1.CDS1 14402584 14402664
chr_2 g6128 g6128.t1 exon g6128.t1.exon2 14405648 14406735
chr_2 g6128 g6128.t1 cds g6128.t1.CDS2 14405648 14406735
chr_2 g6128 g6128.t1 exon g6128.t1.exon3 14406813 14408007
chr_2 g6128 g6128.t1 cds g6128.t1.CDS3 14406813 14408007
chr_2 g6128 g6128.t1 exon g6128.t1.exon4 14408093 14408788
chr_2 g6128 g6128.t1 cds g6128.t1.CDS4 14408093 14408788
chr_2 g6128 g6128.t1 exon g6128.t1.exon5 14408910 14409001
chr_2 g6128 g6128.t1 cds g6128.t1.CDS5 14408910 14409001
chr_2 g6128 g6128.t1 exon g6128.t1.exon6 14409066 14409099
chr_2 g6128 g6128.t1 cds g6128.t1.CDS6 14409066 14409099
chr_2 g6128 g6128.t1 TTS g6128.t1 14409411 14409411

Sequences

>g6128.t1 Gene=g6128 Length=3186
ATGGCTCATCATAAGAGAAATAAAGTGAATTCATCGATAGGAGCATCCGCACTAGAAGAG
GAAAAAGAATCAAATTCTGAGACTTTAATCGATGTATTTCGATGCTTTATATGTATGGAA
AAATTGCAAGATGCACACTTATGCCCTTTCTGTAGTAAATTGTGTTGCTATGTTTGCATA
AGTCGCTGGTTGGTGGAACAAAGGAAGCAATGTCCACATTGTCGTGCTCCACTCCATGTT
CATGAATTAGTTAATTGCCGCTGGTTTGAAGAAGTTGCAAGTCAAGTCGAGAATCTACAA
TTGATGGCCAATAAAACTTCACAATTGACCATTCTAAATGATAAAGATCTCTGTCCAACA
CATAATGAAGAAAAATTGTCGGTTTATTGTTGGACGTGCAAATGCTGTATTTGTGCTAAA
TGCGCACTTTTTGGCGGAACACATGCTAATCATACTTTCAAACAATTGGAATTGGTTTAT
GAGTCACATTTATCTCAAGTAAAGGAAGAAGTTGGACAATTGAGATCTCGTTTAGTAGAA
CTGGTTGGATTTGTATCTGATGTGGAGCAAAATGTTGAGGTAGTCAGATGCTCAAAAGAT
GAAAAAGTTCGAGAAATACGCAATGCCGTTGAATTGATGGTTAGCAGGTTAGATGCTCAA
CTTAAAGTCAAATTGATAAGTCTGATGCGTCAAAAGAATGCATTGTCCTTAGAAACAGAA
TCATTGGAGCACTTATTGCAAGAAATTGAACATCAATTAAACACATGCTCACGTTCACAG
CTCATTAGCAAATCACCCGATTTATTGAAAATGATTAACCAAGTACGTTCTAAGCCAATG
TCAAGCTTTTCATGTACTCCAATTCCAGCGGATTTTGTTAGTGAAATTGTTCCATCTTAC
GACACTGGGACTTTTCTTATTAAAAATTTCACTAAATTGCAACAAAAGGGCGATGCTATT
TATTCAAATCCTCTTCATGTAAATGGATTGTGTTGGCGTTTGAAAGTTTATCCAAATGGA
AATGGAAGTGTACGTAAAGAATATTTAAGCGTCTTCTTAGAATTGTCGTCAGGCTTTCCT
GAAGTTTCAAAATATGAATATCGCGTGCAAATGATACACCCAAATTCTAGCAAAATTATA
CAGCGTGAATTCGTGAGCGACTTTGAATCAAACGAAACTTGGGGATATAATCGCTTCTAT
CGACTTGACTTATTGGCCGAAGAAGGCTACTTGAATACTACAAAAGATACACTCGAGTTA
AGATTTCAAGTTCGAGCGTCAACTTTCTTTCAAAAGTGTCGTGATCAGCAATGGTATATT
AATCAGCTTTTGCGTCAACAATCACAAAATCTCACACTCATTCGAGATTTAAAAGATCGA
CTTGAACGTGAGCAAATGAAAAATCTTGCTTTACAACAAGCTTCAACTACTGCTTCCGAT
AGAAATAGTGGAAAATCAACTAAATTGAAAATAATGAAAGATTCTCAAGTTGAGGATTTA
CTTGTAATACAACAACAACAGCAAGCTCTCCTAAATGATGCAACTTCATTCAGTATAACA
GATGATTTAAAAAAATTGAGCAGTGACGCTAGTCGCAATAGAAATCGTTCTAATGAAAGC
CGTAAAGTTGACATATTGAGTCAACAAAAGGCATCTGAAAAATCACGAGAAAAATCTTTA
GAAAAAATTAAGCAGAGTGTAAGCGCACCGCAAGAACCAAAAACCACTGTTACAACAACA
ACTTCTTTGGCAATTTCTTTTTCATCTCCTAATCTTGCCACAAACACGAGCTTTAGCTCA
AACACATCGAGTTCCGATTCAGAATTTGTAGAATGTAACAATGTGACAAGCACGACGAAT
GTGAAAATTCAAAATCCACTTGACGATGTCAGTTCTCTTGATGAAAATGACAATGGAGAC
GAATCTTTGAATTTGGCAGGAGAAAATGATGTTGAATACGCAGAATTGACTCAACGAATG
ATTTTTCCACAAACATTCACGACTGGCACACAAAAAGCTCAAAATGCGCTCGAAAGTGTA
ACATCATCAGAGGAATCGGACCTAATGTTAATGAATTTATTTGATGGATCATCAAATTCA
AATGACAGTGCATCCTCTTCGCATTCATCAAACTCTTCTTCTTGCACTGCCCCACGAATT
TCAAGTGTCTTGGAAAACTTTGAGACTGCAAACCCTTCAGCATTAGCATCATCATCGACA
ACGACTATTAATGGTGCTTTAGCTAGTAATTATAACACTAATGATTATCACATGCCATCA
GATTTACATTTACAAGAAAACGCTCATTCACTGCCACTCCCACTTGAAAACACTACATGC
GCTAGTCCAGTTTGGAAAACTCAAAAACATTTGAATGAGTTAATTAATAATGTAAAATTA
CTTAACAATGATACAAATTATAATCATTTTCCATCGACATCAAGTAATGTAACAGCAAGC
AAAAATTTTATGCGTCCACCAAGAGCTCTTAGTCATAAACGTTATTCATTAAATGAAAAC
AGTATTGATGGTGATCAAATTGATGTTTCTTTAGCATTTACCAATGACTCTGTTAACATG
AAACGATATACTGACGATATCTGGCAAAAAACAGTTTCATCAGATTGCGGCAATAGTGGT
GATCAATCAATTCAAATTTGGGAAAAGCAGCCAGATGCAAATAAGAATTCTAGGTTAACT
TCTTCATATTGGCCTTATGTGCCACCAAGAAGTGTTTCATGCTATAATGATAACGATGTA
TGGGCAAATATGGCTGGTGGAAATATTTTCTTTCCCGCATCGGGACCATCATCAACTACT
TCTTCACGACGACCACCAACAAGTGATTCAAAAAATCGTTCAAAGAAAAGCAACGCTTCG
AAGTCACATGATCATTCAAATGCGAATTCTTTAGACAGTGATGATGAGTTTAATACGATT
AAAAAGAGATTATCGCTCTCCTCATTGCGAAGTTCACTCTGTAGACAGAAGGCTTTAGAG
AATGGAAATGCGGCTCATTCAAGTGCTTTTTCAATTGATTCCAATGATGATTTTCTACAG
GCATTATCGAATATAAGCTTTGATATTGGATCAATGGGAAATACACGAGCAGAAGATGAG
CATAAAAGTAGTAACAGTAAAAAGAAGTCAAAGTCAGAGCAACAGCAACGTCCAAATTCA
AGTTAA

>g6128.t1 Gene=g6128 Length=1061
MAHHKRNKVNSSIGASALEEEKESNSETLIDVFRCFICMEKLQDAHLCPFCSKLCCYVCI
SRWLVEQRKQCPHCRAPLHVHELVNCRWFEEVASQVENLQLMANKTSQLTILNDKDLCPT
HNEEKLSVYCWTCKCCICAKCALFGGTHANHTFKQLELVYESHLSQVKEEVGQLRSRLVE
LVGFVSDVEQNVEVVRCSKDEKVREIRNAVELMVSRLDAQLKVKLISLMRQKNALSLETE
SLEHLLQEIEHQLNTCSRSQLISKSPDLLKMINQVRSKPMSSFSCTPIPADFVSEIVPSY
DTGTFLIKNFTKLQQKGDAIYSNPLHVNGLCWRLKVYPNGNGSVRKEYLSVFLELSSGFP
EVSKYEYRVQMIHPNSSKIIQREFVSDFESNETWGYNRFYRLDLLAEEGYLNTTKDTLEL
RFQVRASTFFQKCRDQQWYINQLLRQQSQNLTLIRDLKDRLEREQMKNLALQQASTTASD
RNSGKSTKLKIMKDSQVEDLLVIQQQQQALLNDATSFSITDDLKKLSSDASRNRNRSNES
RKVDILSQQKASEKSREKSLEKIKQSVSAPQEPKTTVTTTTSLAISFSSPNLATNTSFSS
NTSSSDSEFVECNNVTSTTNVKIQNPLDDVSSLDENDNGDESLNLAGENDVEYAELTQRM
IFPQTFTTGTQKAQNALESVTSSEESDLMLMNLFDGSSNSNDSASSSHSSNSSSCTAPRI
SSVLENFETANPSALASSSTTTINGALASNYNTNDYHMPSDLHLQENAHSLPLPLENTTC
ASPVWKTQKHLNELINNVKLLNNDTNYNHFPSTSSNVTASKNFMRPPRALSHKRYSLNEN
SIDGDQIDVSLAFTNDSVNMKRYTDDIWQKTVSSDCGNSGDQSIQIWEKQPDANKNSRLT
SSYWPYVPPRSVSCYNDNDVWANMAGGNIFFPASGPSSTTSSRRPPTSDSKNRSKKSNAS
KSHDHSNANSLDSDDEFNTIKKRLSLSSLRSSLCRQKALENGNAAHSSAFSIDSNDDFLQ
ALSNISFDIGSMGNTRAEDEHKSSNSKKKSKSEQQQRPNSS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g6128.t1 CDD cd16619 mRING-HC-C4C4_TRIM37_C-VIII 33 75 8.32943E-27
13 g6128.t1 CDD cd03773 MATH_TRIM37 297 426 2.52802E-61
11 g6128.t1 Coils Coil Coil 232 252 -
10 g6128.t1 Coils Coil Coil 444 474 -
8 g6128.t1 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 14 110 2.7E-20
7 g6128.t1 Gene3D G3DSA:3.30.40.200 - 116 161 4.6E-12
9 g6128.t1 Gene3D G3DSA:2.60.210.10 Apoptosis 302 426 2.1E-23
18 g6128.t1 MobiDBLite mobidb-lite consensus disorder prediction 527 557 -
20 g6128.t1 MobiDBLite mobidb-lite consensus disorder prediction 934 974 -
19 g6128.t1 MobiDBLite mobidb-lite consensus disorder prediction 948 974 -
21 g6128.t1 MobiDBLite mobidb-lite consensus disorder prediction 1033 1061 -
17 g6128.t1 MobiDBLite mobidb-lite consensus disorder prediction 1034 1054 -
3 g6128.t1 PANTHER PTHR36754 E3 UBIQUITIN-PROTEIN LIGASE TRIM37 27 698 1.2E-200
1 g6128.t1 Pfam PF00643 B-box zinc finger 114 155 4.3E-8
2 g6128.t1 Pfam PF00917 MATH domain 307 408 3.4E-8
23 g6128.t1 ProSiteProfiles PS50089 Zinc finger RING-type profile. 35 75 10.055
24 g6128.t1 ProSiteProfiles PS50119 Zinc finger B-box type profile. 113 156 10.765
22 g6128.t1 ProSiteProfiles PS50144 MATH/TRAF domain profile. 300 424 20.519
14 g6128.t1 SMART SM00336 bboxneu5 113 156 2.9E-8
15 g6128.t1 SMART SM00502 RAD_5 156 278 1.2E-7
16 g6128.t1 SMART SM00061 math_3 305 405 2.3E-11
6 g6128.t1 SUPERFAMILY SSF57850 RING/U-box 28 94 2.3E-11
4 g6128.t1 SUPERFAMILY SSF57845 B-box zinc-binding domain 113 174 9.39E-13
5 g6128.t1 SUPERFAMILY SSF49599 TRAF domain-like 304 426 3.43E-25

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
GO:0016567 protein ubiquitination BP
GO:0008270 zinc ion 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