RLG00000023894

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0017332
Physical Location & Seq
Forward (+)
29628435 .. 29629112
678 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000023894

Sequence Viewer

Length: 678 bp
ATGGATGACTACTCAGAGGATTGGTGCTTCGTCTGCAAAGATGGTGGTGTTCTAATGCTTTGCGACCATGAAGGCTGCTCCAAAGTTTATCATCCTAAATGTGTGGGAAGGAAGAATTCCTTCCTCAAAAGCAAGAAGCTCTGGACTTGTACCAAGCATTCCTGTTATGTGTGCCGTAACAACGGATCAACCACCTCAGCAGCAATTAGTTTCTCATGCCTTTGTTGTCCGTACGCATTATGTGACCCTTGCTACACAGCAAGTACTACTAATAGTGCTGCTGAGTTTTCACTGCTAAGAGGGAAGGATAAGTCGGGCCTTTGCAATGACTGTCTAGAAGTCGTTAGGCTTGCGAAAGCAAACTCGGAGTATGGACCAGATGGAGAGAAACTAGACTTCAAAAACCAGGACTCATTCGAATGCCGACTCAAAGAGTATTGGGAATTCATAAAGAAAAAAGAGGGCTTGACTTTAAATGATGTCTATTCCTCAAATGTTGGAAAAAGGAAAAGGCTAGACGAATTTTTAGGATGTTCAAAACCTCTGCTTCAGTTCCATAACTATATGAAACCTGATGCAATGAAACTGTGGACATCTGCTGTTAGAGATCACGGGCTGAGAGAGATCAAAACACAGAGTGTTGAGAGTTGGAAATTTCAGAGTTCAGACATTTGCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Plus-3 SWIB

Protein Analysis

226

Amino Acids

25.58

Weight (kDa)

8.22

Isoelectric Point (pI)

31.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHD_NSD PF22908 8 - 53 6.1e-06 Histone-lysine N-methyltransferase NSD-like, PHD zinc finger
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0017332)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g19471
rosa_laevigata RLG00000023894 RLG00000023895
rosa_multiflora Rmu_sc0004848.1_g000006
rosa_roxburghii Rroxscaffold_6G00406840
rosa_rugosa Rorug03G0144000
rosa_samantha Rh3AG193700 Rh3AG193800 Rh3BG223500 Rh3BG223600 Rh3CG218400 Rh3CG218500 Rh3DG219500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 193
AcsI RAATTY 4 cut(s) 115, 443, 521, 653
AcuI CTGAAG 1 cut(s) 533
AdeI CACNNNGTG 1 cut(s) 638
AfaI GTAC 3 cut(s) 151, 233, 265
AgsI TTSAA 2 cut(s) 400, 537
AjnI CCWGG 1 cut(s) 405
AluBI AGCT 1 cut(s) 139
AluI AGCT 1 cut(s) 139
AlwI GGATC 1 cut(s) 193
AoxI GGCC 1 cut(s) 316
ApeKI GCWGC 3 cut(s) 75, 200, 278
ApoI RAATTY 4 cut(s) 115, 443, 521, 653
Asp700I GAANNNNTTC 1 cut(s) 119
AspS9I GGNCC 2 cut(s) 316, 374
AsuII TTCGAA 1 cut(s) 417
AvaII GGWCC 1 cut(s) 374
BbvCI CCTCAGC 1 cut(s) 196
BbvI GCAGC 3 cut(s) 62, 212, 265
BccI CCATC 2 cut(s) 35, 374
BceAI ACGGC 1 cut(s) 159
BciT130I CCWGG 1 cut(s) 407
BfaI CTAG 3 cut(s) 335, 392, 515
BisI GCNGC 3 cut(s) 76, 201, 279
BlsI GCNGC 3 cut(s) 77, 202, 280
BmcAI AGTACT 1 cut(s) 265
Bme1390I CCNGG 1 cut(s) 407
Bme18I GGWCC 1 cut(s) 374
BmgT120I GGNCC 2 cut(s) 316, 374
BmrFI CCNGG 1 cut(s) 407
BmsI GCATC 1 cut(s) 565
Bpu10I CCTNAGC 1 cut(s) 196
Bpu14I TTCGAA 1 cut(s) 417
Bse3DI GCAATG 2 cut(s) 331, 585
BseBI CCWGG 1 cut(s) 407
BseGI GGATG 3 cut(s) 10, 91, 536
BseMI GCAATG 2 cut(s) 331, 585
BseMII CTCAG 4 cut(s) 27, 210, 273, 608
BseXI GCAGC 3 cut(s) 62, 212, 265
BshFI GGCC 1 cut(s) 318
BsiWI CGTACG 1 cut(s) 231
BsmI GAATGC 2 cut(s) 157, 425
BsnI GGCC 1 cut(s) 318
Bsp119I TTCGAA 1 cut(s) 417
Bsp143I GATC 3 cut(s) 185, 607, 624
BspANI GGCC 1 cut(s) 318
BspCNI CTCAG 4 cut(s) 26, 209, 274, 609
BspPI GGATC 1 cut(s) 193
BspT104I TTCGAA 1 cut(s) 417
BsrDI GCAATG 2 cut(s) 331, 585
BssMI GATC 3 cut(s) 185, 607, 624
Bst2UI CCWGG 1 cut(s) 407
Bst4CI ACNGT 2 cut(s) 332, 588
BstBI TTCGAA 1 cut(s) 417
BstC8I GCNNGC 1 cut(s) 351
BstDEI CTNAG 5 cut(s) 13, 196, 282, 296, 617
BstF5I GGATG 3 cut(s) 10, 91, 536
BstKTI GATC 3 cut(s) 188, 610, 627
BstMBI GATC 3 cut(s) 185, 607, 624
BstMWI GCNNNNNNNGC 1 cut(s) 33
BstNI CCWGG 1 cut(s) 407
BstSCI CCNGG 1 cut(s) 405
BstV1I GCAGC 3 cut(s) 62, 212, 265
BsuRI GGCC 1 cut(s) 318
BtsCI GGATG 3 cut(s) 10, 91, 536
BtsI GCAGTG 1 cut(s) 290
BtsIMutI CAGTG 1 cut(s) 290
Cac8I GCNNGC 1 cut(s) 351
Cfr13I GGNCC 2 cut(s) 316, 374
Csp6I GTAC 3 cut(s) 150, 232, 264
CspCI CAANNNNNGTGG 2 cut(s) 25, 60
CviAII CATG 2 cut(s) 68, 216
CviJI RGCY 7 cut(s) 75, 139, 318, 349, 465, 514, 616
CviKI_1 RGCY 7 cut(s) 75, 139, 318, 349, 465, 514, 616
CviQI GTAC 3 cut(s) 150, 232, 264
DdeI CTNAG 5 cut(s) 13, 196, 282, 296, 617
DpnI GATC 3 cut(s) 187, 609, 626
DpnII GATC 3 cut(s) 185, 607, 624
DraI TTTAAA 1 cut(s) 474
DraIII CACNNNGTG 1 cut(s) 638
Eco47I GGWCC 1 cut(s) 374
Eco57I CTGAAG 1 cut(s) 533
EcoRI GAATTC 2 cut(s) 115, 443
EcoRII CCWGG 1 cut(s) 405
FaeI CATG 2 cut(s) 71, 219
FaiI YATR 9 cut(s) 69, 168, 217, 241, 372, 449, 558, 564, 566
FalI AAGNNNNNCTT 2 cut(s) 104, 136
FatI CATG 2 cut(s) 67, 215
Fnu4HI GCNGC 3 cut(s) 76, 201, 279
FokI GGATG 3 cut(s) 17, 78, 543
Fsp4HI GCNGC 3 cut(s) 76, 201, 279
FspBI CTAG 3 cut(s) 335, 392, 515
GluI GCNGC 3 cut(s) 76, 201, 279
HaeIII GGCC 1 cut(s) 318
Hin1II CATG 2 cut(s) 71, 219
HinfI GANTC 2 cut(s) 410, 426
Hpy166II GTNNAC 1 cut(s) 591
Hpy188I TCNGA 4 cut(s) 16, 367, 660, 667
Hpy188III TCNNGA 2 cut(s) 142, 335
Hpy8I GTNNAC 1 cut(s) 591
HpyAV CCTTC 4 cut(s) 65, 102, 130, 298
HpyCH4III ACNGT 2 cut(s) 332, 588
HpyCH4V TGCA 3 cut(s) 36, 324, 578
HpyF10VI GCNNNNNNNGC 1 cut(s) 33
HpyF3I CTNAG 5 cut(s) 13, 196, 282, 296, 617
Hsp92II CATG 2 cut(s) 71, 219
Kzo9I GATC 3 cut(s) 185, 607, 624
LmnI GCTCC 1 cut(s) 83
LpnPI CCDG 6 cut(s) 127, 175, 390, 392, 419, 585
Lsp1109I GCAGC 3 cut(s) 62, 212, 265
LweI GCATC 1 cut(s) 565
MaeI CTAG 3 cut(s) 335, 392, 515
MaeIII GTNAC 2 cut(s) 176, 242
MalI GATC 3 cut(s) 187, 609, 626
MboI GATC 3 cut(s) 185, 607, 624
MboII GAAGA 1 cut(s) 124
MluCI AATT 5 cut(s) 115, 204, 443, 521, 653
MlyI GAGTC 2 cut(s) 404, 420
MmeI TCCRAC 2 cut(s) 478, 629
MnlI CCTC 7 cut(s) 10, 134, 205, 293, 454, 499, 552
MroXI GAANNNNTTC 1 cut(s) 119
MseI TTAA 1 cut(s) 473
MslI CAYNNNNRTG 1 cut(s) 418
MspR9I CCNGG 1 cut(s) 407
Mva1269I GAATGC 2 cut(s) 157, 425
MvaI CCWGG 1 cut(s) 407
MwoI GCNNNNNNNGC 1 cut(s) 33
NdeII GATC 3 cut(s) 185, 607, 624
NlaIII CATG 2 cut(s) 71, 219
NmuCI GTSAC 1 cut(s) 242
NspV TTCGAA 1 cut(s) 417
PctI GAATGC 2 cut(s) 157, 425
PdmI GAANNNNTTC 1 cut(s) 119
Pfl23II CGTACG 1 cut(s) 231
PkrI GCNGC 3 cut(s) 77, 202, 280
PleI GAGTC 2 cut(s) 404, 420
PpsI GAGTC 2 cut(s) 404, 420
Psp6I CCWGG 1 cut(s) 405
PspGI CCWGG 1 cut(s) 405
PspLI CGTACG 1 cut(s) 231
PspPI GGNCC 2 cut(s) 316, 374
RsaI GTAC 3 cut(s) 151, 233, 265
RsaNI GTAC 3 cut(s) 150, 232, 264
RseI CAYNNNNRTG 1 cut(s) 418
SaqAI TTAA 1 cut(s) 473
SatI GCNGC 3 cut(s) 76, 201, 279
Sau3AI GATC 3 cut(s) 185, 607, 624
Sau96I GGNCC 2 cut(s) 316, 374
ScaI AGTACT 1 cut(s) 265
SchI GAGTC 2 cut(s) 404, 420
ScrFI CCNGG 1 cut(s) 407
SetI ASST 4 cut(s) 141, 197, 544, 574
SfaNI GCATC 1 cut(s) 565
SfuI TTCGAA 1 cut(s) 417
SinI GGWCC 1 cut(s) 374
SmiMI CAYNNNNRTG 1 cut(s) 418
Sse9I AATT 5 cut(s) 115, 204, 443, 521, 653
SspMI CTAG 3 cut(s) 335, 392, 515
StyD4I CCNGG 1 cut(s) 405
TaaI ACNGT 2 cut(s) 332, 588
TaqI TCGA 1 cut(s) 417
TasI AATT 5 cut(s) 115, 204, 443, 521, 653
TatI WGTACW 1 cut(s) 263
Tru1I TTAA 1 cut(s) 473
Tru9I TTAA 1 cut(s) 473
TscAI CASTG 1 cut(s) 297
TseFI GTSAC 1 cut(s) 242
TseI GCWGC 3 cut(s) 75, 200, 278
Tsp45I GTSAC 1 cut(s) 242
TspDTI ATGAA 4 cut(s) 84, 436, 581, 596
TspGWI ACGGA 2 cut(s) 198, 219
TspRI CASTG 1 cut(s) 297
VpaK11BI GGWCC 1 cut(s) 374
XapI RAATTY 4 cut(s) 115, 443, 521, 653
XbaI TCTAGA 1 cut(s) 334
XmnI GAANNNNTTC 1 cut(s) 119
XspI CTAG 3 cut(s) 335, 392, 515
ZrmI AGTACT 1 cut(s) 265
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.