Gene loci information

Transcript annotation

  • This transcript has been annotated as histone-arginine N-methyltransferase.

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 g3115 g3115.t1 TTS g3115.t1 22907001 22907001
chr_3 g3115 g3115.t1 isoform g3115.t1 22907778 22908897
chr_3 g3115 g3115.t1 exon g3115.t1.exon1 22907778 22907988
chr_3 g3115 g3115.t1 cds g3115.t1.CDS1 22907778 22907988
chr_3 g3115 g3115.t1 exon g3115.t1.exon2 22908049 22908239
chr_3 g3115 g3115.t1 cds g3115.t1.CDS2 22908049 22908239
chr_3 g3115 g3115.t1 exon g3115.t1.exon3 22908303 22908543
chr_3 g3115 g3115.t1 cds g3115.t1.CDS3 22908303 22908543
chr_3 g3115 g3115.t1 exon g3115.t1.exon4 22908614 22908897
chr_3 g3115 g3115.t1 cds g3115.t1.CDS4 22908614 22908897
chr_3 g3115 g3115.t1 TSS g3115.t1 22909077 22909077

Sequences

>g3115.t1 Gene=g3115 Length=927
ATGAATAAATCAAATGAACAAAATGGATTTTTACTTAATTCGGATAGTAACTCTAGTGAT
TCTGGTGTTGTTATAAATGGAAATAATGATTCAGATGGAACATTAGCTACTGCTGATCAC
GATTTAATAAAATCACCAATAAATAATTGTAAGCGTCAAAAACCAACCACACCACATCGC
ATGATTCTATGCCCGTCGCTAATTAAGAATGAAAAGCCAAGTGTTCAAAAACAAGCTGCA
GAAATAATAAAACCTTCAAGGACGAAAAATCGTGCTAGAACAAAACTTCTACTCACAAAT
GAAGATAATGTTGTTCATCAAGAACATTTTTATGATATAAAAAAACCCCAAGAAGTTAAT
AATAAAACGCTTAGCAAAACTTTGACAGCAGCTGATAGTAACAAAAAAGTTACCGAATTC
TTCACAGTACGTCGAAGTGTAAGAAAAACTAAGAAAGTAGTACAGGAAGAACGTTTAAAA
AGCTTAGAAGAAGCTATATCAAAAGGCCGTGATGAGGGACTAGAAGTCAAAATTTTTCCT
AATAAAGGGCGTGGGGTTGTTTCTACTCGTCCTTTTAAACGCGGTGAATTTGTTGTCGAG
TATATTGGAGATCTCATATCAATAGCTGAAGCGAATGATCGCGAAGCAAAATACGCAGCA
GATGACAATACGGGTTGTTATATGTACTACTTTAAACATAATGAGCAACAATACTGCATT
GATGCAACAGCAGAGACTGGAAAATTAGGACGTTTAGTTAATCATTCCCGCAATGGCAAT
CTAATGACGAAGGTAGTTATGATTCAAAATCAACCACATTTAGTGTTGATCGCAAAAGAA
GATATTGACGCTGGAGTGGAATTGACATATGATTATGGTGACAGATCAAAAGAAGCACTC
TTACATCATCCTTGGCTAGCGTTTTGA

>g3115.t1 Gene=g3115 Length=308
MNKSNEQNGFLLNSDSNSSDSGVVINGNNDSDGTLATADHDLIKSPINNCKRQKPTTPHR
MILCPSLIKNEKPSVQKQAAEIIKPSRTKNRARTKLLLTNEDNVVHQEHFYDIKKPQEVN
NKTLSKTLTAADSNKKVTEFFTVRRSVRKTKKVVQEERLKSLEEAISKGRDEGLEVKIFP
NKGRGVVSTRPFKRGEFVVEYIGDLISIAEANDREAKYAADDNTGCYMYYFKHNEQQYCI
DATAETGKLGRLVNHSRNGNLMTKVVMIQNQPHLVLIAKEDIDAGVELTYDYGDRSKEAL
LHHPWLAF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3115.t1 CDD cd10528 SET_SETD8 156 295 2.75282E-79
5 g3115.t1 Coils Coil Coil 152 172 -
4 g3115.t1 Gene3D G3DSA:2.170.270.10 SET domain 59 307 2.5E-55
2 g3115.t1 PANTHER PTHR46167 N-LYSINE METHYLTRANSFERASE KMT5A 85 308 1.5E-88
1 g3115.t1 Pfam PF00856 SET domain 183 293 1.6E-15
9 g3115.t1 ProSiteProfiles PS51571 Histone-lysine N-methyltransferase (EC 2.1.1.43) family profile. 114 308 45.476
8 g3115.t1 ProSiteProfiles PS50280 SET domain profile. 172 293 17.04
7 g3115.t1 SMART SM00317 set_7 172 299 4.9E-29
3 g3115.t1 SUPERFAMILY SSF82199 SET domain 167 302 1.42E-36

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:0018024 histone-lysine N-methyltransferase activity 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