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.t1 TSS g7959.t1 27238916 27238916
chr_2 g7959 g7959.t1 isoform g7959.t1 27239094 27242359
chr_2 g7959 g7959.t1 exon g7959.t1.exon1 27239094 27239184
chr_2 g7959 g7959.t1 cds g7959.t1.CDS1 27239094 27239184
chr_2 g7959 g7959.t1 exon g7959.t1.exon2 27239341 27239718
chr_2 g7959 g7959.t1 cds g7959.t1.CDS2 27239341 27239718
chr_2 g7959 g7959.t1 exon g7959.t1.exon3 27239780 27242007
chr_2 g7959 g7959.t1 cds g7959.t1.CDS3 27239780 27242007
chr_2 g7959 g7959.t1 exon g7959.t1.exon4 27242072 27242359
chr_2 g7959 g7959.t1 cds g7959.t1.CDS4 27242072 27242359
chr_2 g7959 g7959.t1 TTS g7959.t1 NA NA

Sequences

>g7959.t1 Gene=g7959 Length=2985
ATGACGAAAATTGGCGCAAATAATCTCAAAACAAGGAATTCAAAAGTCTCAAATATGAAT
GTTTGGAAGAAAAACAACGATTCAAGTGCAGATATAAAAACAAAAAATTCTGAAGAAACA
GTGAAAGTAGAAATGTCTGAAAATTTTATTATGGAATCAACACTAAATAACAACATTTTA
ATGGATCTCGATAAAGAAATTAAAAAGGAAAATGAAGCAAATTCTGATAATGAAATTACA
TCTGATCTTTCATCAGGTGATAATGAACATGAAACAGTTGAAGATAAACATTCAGTGATA
TCTGACACTGATAGTGCTTTAAGTTCGATAAATACAATTGGTTCAGTCAAAAGTGACCCA
TCAAATGTCACTGACAATAATTTATATGTAGGCAAAATTGTTTGGGGCTCATTTAGTAAA
CTCAATTGGTTTCCATGTATGATTTATTCAATTGAAGGATGCAATGACAATAAAGTACTT
GTCAAATATTTTAGTTATGGTGGCTTTAAAGCTTATCTGCCAACACGCAACATTTTTGAC
TTTGAAGGTATGGAAGAATTTTGGCATGAAATCACACAAATTCGTAAAATCAAGCGATCA
AAAATTACTTTATCCAAAACATGTCGTCGTGCAATTGAAGAAGCAAGATGCTTCACAACC
TTTCCCATTTATGATCGTATAAAAATTTATGACACAAGTGTTGAACTACAAAAGAAATTT
ACAAATTTAGAAAAATTTGAGAAATCATGTGAAGAATGTGTTGAAGATAAGAGCATTCAT
GAAAATTTAAGATTAATCTTCAGAACTCTTCATGAATATGATGAAAAACAAAAGCAGCTT
GAAAATATGCCAAAGAAAAAAGAGATCAAGCAAGAGATCATCAAGGTTGAAAGTCCATCA
GAAGAGCAATTAAATAAACGAATTTCAATTAGAAGAATTTCTATTGCAAAGAGAAAGTTA
GAACATGAAATGTCAATAGAAAAAGAAAGCACACCATCAGCTAAAGATGATGAATGTCAA
CCACCAAGTTTGAAAAAAATCAAAACCAAAAAAGATGAAACACTTGAAGAAAGATTTCTT
TCTGAAGTTAAAGATATTCATTACCTTTTCAAAAATGCATCGAAAAATAAAATTTGCGCT
AAATGTCAAACCAAAACTGAAAATGATGAACAAACTTATCGTTGTTCTGGAAAAAATTGT
GCTGCTTATATGCACGAGTCATGTTTTAAAAGTGTTGAGAAACGAAAAGAACAATTTCGT
CATAAAACTGGTGATAGTGATGACATAATTCTCACTGAACATCTCATATCATTTTATACA
TGTGAATCTTGCCATATGAATCAAAAGAAATGCTTTGTATGTAGACAAAATATTGAAAAA
GATGATACAGACGTTGTGAATTGCACAACCTCCGATTGCAAACAATCATATCATGAAAAA
TGCATAAAGTATCTACCGAAGATAAGAAAAACTTGTCCACAACATTGCTGTCACACATGT
AACGCTAAGAATATCAACAAAAATGGAACACTAACTAAATGTATAAAATGTGTTGCAACA
TATCACACTGATATCTATTGCATTCCAGCTGGTTCACAAATTCTCTCAAAAACACAAATA
ATCTGCCCTCGTCACATGTCAGAGAAGGAATTGCTGTTAAAGAAAAAGCCATTAAATATC
GACTGGTGCAGTGTGTGTACGAAAAGTGGAAGTCTAATTTGTTGCGATGGCTGTCCTAAT
GCATTCCATTCTGAATGCTTGCCATCGAAAGCTTGTGAATCTGAGGAAATTTTCTTGTGC
GATGAATGCATCGAAGGACGAATGCCTGTTTATAATTCAATCGTATGGGCCAAAGTTGGA
CATTATCGATGGTGGCCAGCATTTGTTATGCTTCCATGGGTTGTTCCATTGCAAATTACA
AAAAGTCAAAGGTTTGAGAGAGAATTTTGTATAAGATTCTTTGGCAGTTCTGACTATTAT
TACATCACTTGTGAACGAGTTTTTCCATTTGATACACAAAATGAGGATGTTTACGTAGCT
AAATCAGGTAATTCAAGACTTGATTCTGCTTATTATCTTGCCTTAGCTGAAGCAAATGAA
ATGATGAAAATTTTAAATGCCGAAAATGAAAAGAAAAAAGATACAAAACCAAAGTTTTAT
ACAAAAGTCACTCAAAATAGAGCAGTTCCACCAGTGAAGCTGAAAAAACCAGGTGAAAGT
ACATTAGAAAAATGTGATTGTAGTCCTAATGATGTTTTGCCATGTGGAAGAGACAGCAAT
TGCATCAACATGCTTCTGAATGTCGAATGCAGTAAATCATGCCCAGCAGGAAGCAAATGT
GAAAATCAAAAGCTCAGAAATCGAGAAAATGTTGAAATAAAAATTGTGCGAACAATGAAT
CGTGGTTTTGGTGCAATTTGTGTCAATGACATTCCACCAGATACATTTATTATTGAATAT
GTTGGTGAATTAATTGATAATAATGAATTGAATCGTCGAATGAAGCACAAGATTCAACAT
AAAGAAAAAGAATTTTATTTCTTGACCATTGAAAGCGATTTGTTTGTTGATGCTGAATTT
TATGCTAATAAATCACGTTTTCTTAATCATTCATGTAATCCCAATTGTGAGACTAAAAAA
GTGACAGTTGATGGCAACACGAGGATAGGAATTTTCTCTAATCAATTTATCAAAGCGGGC
ACTGAATTAACATTTGATTATAAAATGGAATTTGTTGGAAATAATAAAACAAATTGTTTC
TGTGGCTCTGCAAACTGTACTGGCCTAATTGGCGATGCAAAGAAAATTGAAGATCAAAAG
AAAATTAAGAAAGAAGGTATCAACAAAAAGACAACAAAGAAAGCTAAAAAGACCAAGAAT
CCACCAAAAGTTTCTACAGTGAAACCAAAGGAAATTGAAGAATCGTGGAAAACTCAAATT
GAGAGTACAATTAATCCTTTTGATACCATGATGAGCTTGATCTAA

>g7959.t1 Gene=g7959 Length=994
MTKIGANNLKTRNSKVSNMNVWKKNNDSSADIKTKNSEETVKVEMSENFIMESTLNNNIL
MDLDKEIKKENEANSDNEITSDLSSGDNEHETVEDKHSVISDTDSALSSINTIGSVKSDP
SNVTDNNLYVGKIVWGSFSKLNWFPCMIYSIEGCNDNKVLVKYFSYGGFKAYLPTRNIFD
FEGMEEFWHEITQIRKIKRSKITLSKTCRRAIEEARCFTTFPIYDRIKIYDTSVELQKKF
TNLEKFEKSCEECVEDKSIHENLRLIFRTLHEYDEKQKQLENMPKKKEIKQEIIKVESPS
EEQLNKRISIRRISIAKRKLEHEMSIEKESTPSAKDDECQPPSLKKIKTKKDETLEERFL
SEVKDIHYLFKNASKNKICAKCQTKTENDEQTYRCSGKNCAAYMHESCFKSVEKRKEQFR
HKTGDSDDIILTEHLISFYTCESCHMNQKKCFVCRQNIEKDDTDVVNCTTSDCKQSYHEK
CIKYLPKIRKTCPQHCCHTCNAKNINKNGTLTKCIKCVATYHTDIYCIPAGSQILSKTQI
ICPRHMSEKELLLKKKPLNIDWCSVCTKSGSLICCDGCPNAFHSECLPSKACESEEIFLC
DECIEGRMPVYNSIVWAKVGHYRWWPAFVMLPWVVPLQITKSQRFEREFCIRFFGSSDYY
YITCERVFPFDTQNEDVYVAKSGNSRLDSAYYLALAEANEMMKILNAENEKKKDTKPKFY
TKVTQNRAVPPVKLKKPGESTLEKCDCSPNDVLPCGRDSNCINMLLNVECSKSCPAGSKC
ENQKLRNRENVEIKIVRTMNRGFGAICVNDIPPDTFIIEYVGELIDNNELNRRMKHKIQH
KEKEFYFLTIESDLFVDAEFYANKSRFLNHSCNPNCETKKVTVDGNTRIGIFSNQFIKAG
TELTFDYKMEFVGNNKTNCFCGSANCTGLIGDAKKIEDQKKIKKEGINKKTTKKAKKTKN
PPKVSTVKPKEIEESWKTQIESTINPFDTMMSLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g7959.t1 CDD cd15566 PHD3_NSD 496 545 1.30659E-13
15 g7959.t1 Coils Coil Coil 695 715 -
12 g7959.t1 Gene3D G3DSA:2.30.30.140 - 118 220 2.7E-7
14 g7959.t1 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 554 607 1.9E-10
13 g7959.t1 Gene3D G3DSA:2.30.30.140 - 608 709 2.7E-21
11 g7959.t1 Gene3D G3DSA:2.170.270.10 SET domain 710 931 2.2E-67
28 g7959.t1 MobiDBLite mobidb-lite consensus disorder prediction 71 99 -
25 g7959.t1 MobiDBLite mobidb-lite consensus disorder prediction 83 99 -
26 g7959.t1 MobiDBLite mobidb-lite consensus disorder prediction 947 970 -
27 g7959.t1 MobiDBLite mobidb-lite consensus disorder prediction 947 963 -
5 g7959.t1 PANTHER PTHR22884:SF312 HISTONE-LYSINE N-METHYLTRANSFERASE, H3 LYSINE-36 AND H4 LYSINE-20 SPECIFIC 439 951 3.0E-129
6 g7959.t1 PANTHER PTHR22884 SET DOMAIN PROTEINS 439 951 3.0E-129
4 g7959.t1 Pfam PF00855 PWWP domain 130 216 2.1E-6
3 g7959.t1 Pfam PF00855 PWWP domain 612 701 2.5E-16
2 g7959.t1 Pfam PF17907 AWS domain 751 786 2.2E-9
1 g7959.t1 Pfam PF00856 SET domain 802 907 2.1E-16
24 g7959.t1 ProSitePatterns PS01359 Zinc finger PHD-type signature. 563 603 -
32 g7959.t1 ProSiteProfiles PS50016 Zinc finger PHD-type profile. 560 606 9.0
30 g7959.t1 ProSiteProfiles PS50812 PWWP domain profile. 611 673 16.07
29 g7959.t1 ProSiteProfiles PS51215 AWS domain profile. 740 789 13.452
31 g7959.t1 ProSiteProfiles PS50280 SET domain profile. 789 908 17.852
33 g7959.t1 ProSiteProfiles PS50868 Post-SET domain profile. 915 931 9.609
17 g7959.t1 SMART SM00249 PHD_3 378 445 3.7
18 g7959.t1 SMART SM00249 PHD_3 450 518 15.0
19 g7959.t1 SMART SM00249 PHD_3 562 604 9.0E-8
21 g7959.t1 SMART SM00293 PWWP_4 609 671 9.3E-9
22 g7959.t1 SMART SM00570 shorttest3 740 790 1.3E-11
23 g7959.t1 SMART SM00317 set_7 791 914 8.8E-37
20 g7959.t1 SMART SM00508 PostSET_3 915 931 0.0064
7 g7959.t1 SUPERFAMILY SSF63748 Tudor/PWWP/MBT 123 224 3.36E-9
10 g7959.t1 SUPERFAMILY SSF57903 FYVE/PHD zinc finger 559 617 3.32E-9
8 g7959.t1 SUPERFAMILY SSF63748 Tudor/PWWP/MBT 600 705 7.22E-20
9 g7959.t1 SUPERFAMILY SSF82199 SET domain 708 928 1.83E-59

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

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