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_2 g7959 g7959.t4 isoform g7959.t4 27240688 27242359
chr_2 g7959 g7959.t4 exon g7959.t4.exon1 27240688 27242007
chr_2 g7959 g7959.t4 cds g7959.t4.CDS1 27240946 27242007
chr_2 g7959 g7959.t4 exon g7959.t4.exon2 27242072 27242359
chr_2 g7959 g7959.t4 cds g7959.t4.CDS2 27242072 27242359
chr_2 g7959 g7959.t4 TSS g7959.t4 NA NA
chr_2 g7959 g7959.t4 TTS g7959.t4 NA NA

Sequences

>g7959.t4 Gene=g7959 Length=1608
AAAGATGATACAGACGTTGTGAATTGCACAACCTCCGATTGCAAACAATCATATCATGAA
AAATGCATAAAGTATCTACCGAAGATAAGAAAAACTTGTCCACAACATTGCTGTCACACA
TGTAACGCTAAGAATATCAACAAAAATGGAACACTAACTAAATGTATAAAATGTGTTGCA
ACATATCACACTGATATCTATTGCATTCCAGCTGGTTCACAAATTCTCTCAAAAACACAA
ATAATCTGCCCTCGTCACATGTCAGAGAAGGAATTGCTGTTAAAGAAAAAGCCATTAAAT
ATCGACTGGTGCAGTGTGTGTACGAAAAGTGGAAGTCTAATTTGTTGCGATGGCTGTCCT
AATGCATTCCATTCTGAATGCTTGCCATCGAAAGCTTGTGAATCTGAGGAAATTTTCTTG
TGCGATGAATGCATCGAAGGACGAATGCCTGTTTATAATTCAATCGTATGGGCCAAAGTT
GGACATTATCGATGGTGGCCAGCATTTGTTATGCTTCCATGGGTTGTTCCATTGCAAATT
ACAAAAAGTCAAAGGTTTGAGAGAGAATTTTGTATAAGATTCTTTGGCAGTTCTGACTAT
TATTACATCACTTGTGAACGAGTTTTTCCATTTGATACACAAAATGAGGATGTTTACGTA
GCTAAATCAGGTAATTCAAGACTTGATTCTGCTTATTATCTTGCCTTAGCTGAAGCAAAT
GAAATGATGAAAATTTTAAATGCCGAAAATGAAAAGAAAAAAGATACAAAACCAAAGTTT
TATACAAAAGTCACTCAAAATAGAGCAGTTCCACCAGTGAAGCTGAAAAAACCAGGTGAA
AGTACATTAGAAAAATGTGATTGTAGTCCTAATGATGTTTTGCCATGTGGAAGAGACAGC
AATTGCATCAACATGCTTCTGAATGTCGAATGCAGTAAATCATGCCCAGCAGGAAGCAAA
TGTGAAAATCAAAAGCTCAGAAATCGAGAAAATGTTGAAATAAAAATTGTGCGAACAATG
AATCGTGGTTTTGGTGCAATTTGTGTCAATGACATTCCACCAGATACATTTATTATTGAA
TATGTTGGTGAATTAATTGATAATAATGAATTGAATCGTCGAATGAAGCACAAGATTCAA
CATAAAGAAAAAGAATTTTATTTCTTGACCATTGAAAGCGATTTGTTTGTTGATGCTGAA
TTTTATGCTAATAAATCACGTTTTCTTAATCATTCATGTAATCCCAATTGTGAGACTAAA
AAAGTGACAGTTGATGGCAACACGAGGATAGGAATTTTCTCTAATCAATTTATCAAAGCG
GGCACTGAATTAACATTTGATTATAAAATGGAATTTGTTGGAAATAATAAAACAAATTGT
TTCTGTGGCTCTGCAAACTGTACTGGCCTAATTGGCGATGCAAAGAAAATTGAAGATCAA
AAGAAAATTAAGAAAGAAGGTATCAACAAAAAGACAACAAAGAAAGCTAAAAAGACCAAG
AATCCACCAAAAGTTTCTACAGTGAAACCAAAGGAAATTGAAGAATCGTGGAAAACTCAA
ATTGAGAGTACAATTAATCCTTTTGATACCATGATGAGCTTGATCTAA

>g7959.t4 Gene=g7959 Length=449
MSEKELLLKKKPLNIDWCSVCTKSGSLICCDGCPNAFHSECLPSKACESEEIFLCDECIE
GRMPVYNSIVWAKVGHYRWWPAFVMLPWVVPLQITKSQRFEREFCIRFFGSSDYYYITCE
RVFPFDTQNEDVYVAKSGNSRLDSAYYLALAEANEMMKILNAENEKKKDTKPKFYTKVTQ
NRAVPPVKLKKPGESTLEKCDCSPNDVLPCGRDSNCINMLLNVECSKSCPAGSKCENQKL
RNRENVEIKIVRTMNRGFGAICVNDIPPDTFIIEYVGELIDNNELNRRMKHKIQHKEKEF
YFLTIESDLFVDAEFYANKSRFLNHSCNPNCETKKVTVDGNTRIGIFSNQFIKAGTELTF
DYKMEFVGNNKTNCFCGSANCTGLIGDAKKIEDQKKIKKEGINKKTTKKAKKTKNPPKVS
TVKPKEIEESWKTQIESTINPFDTMMSLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g7959.t4 Coils Coil Coil 150 170 -
11 g7959.t4 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 9 62 6.9E-11
10 g7959.t4 Gene3D G3DSA:2.30.30.140 - 63 164 8.1E-22
9 g7959.t4 Gene3D G3DSA:2.170.270.10 SET domain 165 386 4.3E-68
19 g7959.t4 MobiDBLite mobidb-lite consensus disorder prediction 402 425 -
20 g7959.t4 MobiDBLite mobidb-lite consensus disorder prediction 402 418 -
4 g7959.t4 PANTHER PTHR22884:SF312 HISTONE-LYSINE N-METHYLTRANSFERASE, H3 LYSINE-36 AND H4 LYSINE-20 SPECIFIC 13 406 4.5E-108
5 g7959.t4 PANTHER PTHR22884 SET DOMAIN PROTEINS 13 406 4.5E-108
3 g7959.t4 Pfam PF00855 PWWP domain 67 156 7.9E-17
2 g7959.t4 Pfam PF17907 AWS domain 206 241 8.3E-10
1 g7959.t4 Pfam PF00856 SET domain 257 362 6.4E-17
13 g7959.t4 ProSitePatterns PS01359 Zinc finger PHD-type signature. 18 58 -
24 g7959.t4 ProSiteProfiles PS50016 Zinc finger PHD-type profile. 15 61 9.0
22 g7959.t4 ProSiteProfiles PS50812 PWWP domain profile. 66 128 16.07
21 g7959.t4 ProSiteProfiles PS51215 AWS domain profile. 195 244 13.452
23 g7959.t4 ProSiteProfiles PS50280 SET domain profile. 244 363 17.852
25 g7959.t4 ProSiteProfiles PS50868 Post-SET domain profile. 370 386 9.609
14 g7959.t4 SMART SM00249 PHD_3 17 59 9.0E-8
16 g7959.t4 SMART SM00293 PWWP_4 64 126 9.3E-9
17 g7959.t4 SMART SM00570 shorttest3 195 245 1.3E-11
18 g7959.t4 SMART SM00317 set_7 246 369 8.8E-37
15 g7959.t4 SMART SM00508 PostSET_3 370 386 0.0064
8 g7959.t4 SUPERFAMILY SSF57903 FYVE/PHD zinc finger 12 71 6.64E-10
6 g7959.t4 SUPERFAMILY SSF63748 Tudor/PWWP/MBT 55 160 2.05E-20
7 g7959.t4 SUPERFAMILY SSF82199 SET domain 163 383 3.53E-60

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:0005634 nucleus CC
GO:0005515 protein binding MF
GO:0018024 histone-lysine N-methyltransferase activity MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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