Rh5DG490500

RNA polymerase II C-terminal domain phosphatase-like 4

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0017814
Physical Location & Seq
Reverse (-)
77079158 .. 77079829
672 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG490500.1

Sequence Viewer

Length: 672 bp
ATGCGAAAGTATCTATTCTTTAAATCCAAATCGGCTCCCTATAATCGAAATTTCAAGACTCTTTCTGAATTGAAAACTGACGAGATTGATGAGTTGTCTCAACAACCCTATCTTGCAACTATTCTCCAACTTCTGAAGCAAATCCACAGCATGTTCTTCGATGATGAAGCGACCGTTGGGGACAATCTTATCGACAGAGATGTGAGGAAGGTGTTGGAAACTCTTAGGAAGAATGTCTTGAAAGGGTGTAAGATTGTTTTCCCCCCTCGTCGGCCCGATATGATTCAGTGGTGGAATATGGCACAGCGTTTGGGAGCTACTTGTGTTAAGAAAGTGGATGATCCATCAGTGACACATGTGGTTGCGACGCAAACTGATGCTGGAAGGCCAATGGCCGTGGAGGACAACAAGTTCTTGGTCCATTTCCGGTGGATAGAAGAATCAAACTTTATGTGGCAAAAGCGAACTGAAGACAAGTTTCCTGTTCCTGTAATTGGGGTTGGCAAAATTGTCCAACCTGAAAGTGCCAGCCCTGAAATTACCAGCCCCGAAATTACCCTCCCTGGATTCTTCACCCGCCTCCGATCAGTATTCCTTCCCTCATTCCTTGACCCGGTTACCTTGTTGGCTACAATAAGTGGCCTGATTGGCAGGAAGAGGAAGAGGTTATAG
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
BRCT NIF PTCB-BRCT

Protein Analysis

223

Amino Acids

25.71

Weight (kDa)

9.54

Isoelectric Point (pI)

51.17

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0017814)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr5g0070271 RchiOBHm_Chr5g0070281
rosa_laevigata RLG00000036122
rosa_multiflora Rmu_sc0009590.1_g000001
rosa_roxburghii Rroxscaffold_1G00010870
rosa_rugosa Rorug05G0404700 Rorug05G0404800
rosa_samantha Rh5AG460000 Rh5BG478600 Rh5CG502800 Rh5DG490500 Rh5DG490600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 577
AclWI GGATC 1 cut(s) 335
AcoI YGGCCR 1 cut(s) 393
AcsI RAATTY 1 cut(s) 49
AcuI CTGAAG 2 cut(s) 155, 489
AfiI CCNNNNNNNGG 3 cut(s) 270, 494, 613
AflIII ACRYGT 1 cut(s) 355
AgsI TTSAA 3 cut(s) 55, 73, 241
AjnI CCWGG 1 cut(s) 562
AjuI GAANNNNNNNTTGG 2 cut(s) 159, 191
AloI GAACNNNNNNTCC 2 cut(s) 395, 427
AluBI AGCT 1 cut(s) 317
AluI AGCT 1 cut(s) 317
Alw26I GTCTC 1 cut(s) 102
AlwI GGATC 1 cut(s) 335
AoxI GGCC 4 cut(s) 272, 386, 393, 640
ApoI RAATTY 1 cut(s) 49
AspS9I GGNCC 2 cut(s) 273, 418
AsuC2I CCSGG 1 cut(s) 614
AsuHPI GGTGA 1 cut(s) 565
AvaII GGWCC 1 cut(s) 418
BbsI GAAGAC 1 cut(s) 477
BccI CCATC 1 cut(s) 352
BceAI ACGGC 1 cut(s) 380
BcgI CGANNNNNNTGC 2 cut(s) 139, 173
BciT130I CCWGG 1 cut(s) 564
BcnI CCSGG 1 cut(s) 614
BcoDI GTCTC 1 cut(s) 102
BglI GCCNNNNNGGC 1 cut(s) 648
Bme1390I CCNGG 2 cut(s) 564, 614
Bme18I GGWCC 1 cut(s) 418
BmgT120I GGNCC 2 cut(s) 273, 418
BmiI GGNNCC 1 cut(s) 36
BmrFI CCNGG 2 cut(s) 564, 614
BmsI GCATC 1 cut(s) 367
BpiI GAAGAC 1 cut(s) 477
BpuMI CCSGG 1 cut(s) 614
BsaJI CCNNGG 2 cut(s) 396, 562
BsaWI WCCGGW 1 cut(s) 426
Bsc4I CCNNNNNNNGG 3 cut(s) 270, 494, 613
BseBI CCWGG 1 cut(s) 564
BseDI CCNNGG 2 cut(s) 396, 562
BseGI GGATG 1 cut(s) 343
BseLI CCNNNNNNNGG 3 cut(s) 270, 494, 613
Bsh1285I CGRYCG 1 cut(s) 174
BshFI GGCC 4 cut(s) 274, 388, 395, 642
BsiEI CGRYCG 1 cut(s) 174
BsiSI CCGG 2 cut(s) 427, 614
BslFI GGGAC 1 cut(s) 194
BslI CCNNNNNNNGG 3 cut(s) 270, 494, 613
BsmAI GTCTC 1 cut(s) 102
BsmFI GGGAC 1 cut(s) 194
BsnI GGCC 4 cut(s) 274, 388, 395, 642
Bsp143I GATC 2 cut(s) 340, 584
BspACI CCGC 1 cut(s) 577
BspANI GGCC 4 cut(s) 274, 388, 395, 642
BspLI GGNNCC 1 cut(s) 36
BspPI GGATC 1 cut(s) 335
BssECI CCNNGG 2 cut(s) 396, 562
BssMI GATC 2 cut(s) 340, 584
Bst2UI CCWGG 1 cut(s) 564
Bst4CI ACNGT 1 cut(s) 175
Bst6I CTCTTC 2 cut(s) 650, 656
BstC8I GCNNGC 1 cut(s) 529
BstDEI CTNAG 1 cut(s) 224
BstDSI CCRYGG 1 cut(s) 396
BstEII GGTNACC 1 cut(s) 616
BstF5I GGATG 1 cut(s) 343
BstKTI GATC 2 cut(s) 343, 587
BstMAI GTCTC 1 cut(s) 102
BstMBI GATC 2 cut(s) 340, 584
BstMCI CGRYCG 1 cut(s) 174
BstMWI GCNNNNNNNGC 1 cut(s) 648
BstNI CCWGG 1 cut(s) 564
BstNSI RCATGY 2 cut(s) 154, 359
BstPI GGTNACC 1 cut(s) 616
BstSCI CCNGG 2 cut(s) 562, 612
BstV2I GAAGAC 1 cut(s) 477
BsuRI GGCC 4 cut(s) 274, 388, 395, 642
BtgI CCRYGG 1 cut(s) 396
BtsCI GGATG 1 cut(s) 343
BtsIMutI CAGTG 2 cut(s) 293, 354
Cac8I GCNNGC 1 cut(s) 529
Cfr13I GGNCC 2 cut(s) 273, 418
CseI GACGC 1 cut(s) 376
CspCI CAANNNNNGTGG 2 cut(s) 378, 413
CviAII CATG 2 cut(s) 151, 356
CviJI RGCY 9 cut(s) 35, 274, 317, 388, 395, 531, 546, 629, 642
CviKI_1 RGCY 9 cut(s) 35, 274, 317, 388, 395, 531, 546, 629, 642
DdeI CTNAG 1 cut(s) 224
DpnI GATC 2 cut(s) 342, 586
DpnII GATC 2 cut(s) 340, 584
DraI TTTAAA 1 cut(s) 22
EaeI YGGCCR 1 cut(s) 393
Eam1104I CTCTTC 2 cut(s) 650, 656
EarI CTCTTC 2 cut(s) 650, 656
Eco47I GGWCC 1 cut(s) 418
Eco57I CTGAAG 2 cut(s) 155, 489
Eco91I GGTNACC 1 cut(s) 616
EcoO65I GGTNACC 1 cut(s) 616
EcoRII CCWGG 1 cut(s) 562
FaeI CATG 2 cut(s) 154, 359
FaiI YATR 7 cut(s) 42, 152, 281, 299, 357, 452, 670
FalI AAGNNNNNCTT 2 cut(s) 221, 253
FaqI GGGAC 1 cut(s) 194
FatI CATG 2 cut(s) 150, 355
FauI CCCGC 1 cut(s) 584
FokI GGATG 1 cut(s) 350
HaeIII GGCC 4 cut(s) 274, 388, 395, 642
HapII CCGG 2 cut(s) 427, 614
HgaI GACGC 1 cut(s) 376
Hin1II CATG 2 cut(s) 154, 359
HinfI GANTC 4 cut(s) 58, 283, 440, 567
HpaII CCGG 2 cut(s) 427, 614
HphI GGTGA 1 cut(s) 565
Hpy188I TCNGA 3 cut(s) 67, 135, 584
Hpy188III TCNNGA 2 cut(s) 55, 238
Hpy99I CGWCG 2 cut(s) 273, 370
HpyAV CCTTC 3 cut(s) 202, 378, 605
HpyCH4III ACNGT 1 cut(s) 175
HpyCH4V TGCA 1 cut(s) 116
HpyF10VI GCNNNNNNNGC 1 cut(s) 648
HpyF3I CTNAG 1 cut(s) 224
Hsp92II CATG 2 cut(s) 154, 359
Kzo9I GATC 2 cut(s) 340, 584
LmnI GCTCC 2 cut(s) 40, 314
LweI GCATC 1 cut(s) 367
MaeIII GTNAC 2 cut(s) 349, 616
MalI GATC 2 cut(s) 342, 586
MboI GATC 2 cut(s) 340, 584
MboII GAAGA 6 cut(s) 148, 241, 449, 482, 562, 667
MluCI AATT 6 cut(s) 49, 68, 492, 507, 537, 552
MlyI GAGTC 1 cut(s) 52
MmeI TCCRAC 3 cut(s) 151, 195, 538
MnlI CCTC 8 cut(s) 198, 276, 394, 569, 590, 610, 651, 657
MseI TTAA 2 cut(s) 21, 327
MspI CCGG 2 cut(s) 427, 614
MspR9I CCNGG 2 cut(s) 564, 614
MvaI CCWGG 1 cut(s) 564
MwoI GCNNNNNNNGC 1 cut(s) 648
NciI CCSGG 1 cut(s) 614
NdeII GATC 2 cut(s) 340, 584
NlaIII CATG 2 cut(s) 154, 359
NlaIV GGNNCC 1 cut(s) 36
NmuCI GTSAC 1 cut(s) 349
NspI RCATGY 2 cut(s) 154, 359
PciI ACATGT 1 cut(s) 355
PfeI GAWTC 3 cut(s) 283, 440, 567
PleI GAGTC 1 cut(s) 52
PpsI GAGTC 1 cut(s) 52
PscI ACATGT 1 cut(s) 355
Psp6I CCWGG 1 cut(s) 562
PspEI GGTNACC 1 cut(s) 616
PspGI CCWGG 1 cut(s) 562
PspN4I GGNNCC 1 cut(s) 36
PspPI GGNCC 2 cut(s) 273, 418
SaqAI TTAA 2 cut(s) 21, 327
Sau3AI GATC 2 cut(s) 340, 584
Sau96I GGNCC 2 cut(s) 273, 418
SchI GAGTC 1 cut(s) 52
ScrFI CCNGG 2 cut(s) 564, 614
SetI ASST 5 cut(s) 213, 319, 520, 623, 668
SfaNI GCATC 1 cut(s) 367
SinI GGWCC 1 cut(s) 418
Sse9I AATT 6 cut(s) 49, 68, 492, 507, 537, 552
SsiI CCGC 1 cut(s) 577
StyD4I CCNGG 2 cut(s) 562, 612
TaaI ACNGT 1 cut(s) 175
TaqI TCGA 3 cut(s) 46, 159, 192
TasI AATT 6 cut(s) 49, 68, 492, 507, 537, 552
TfiI GAWTC 3 cut(s) 283, 440, 567
Tru1I TTAA 2 cut(s) 21, 327
Tru9I TTAA 2 cut(s) 21, 327
TscAI CASTG 2 cut(s) 293, 354
TseFI GTSAC 1 cut(s) 349
Tsp45I GTSAC 1 cut(s) 349
TspDTI ATGAA 1 cut(s) 180
TspRI CASTG 2 cut(s) 293, 354
VpaK11BI GGWCC 1 cut(s) 418
XapI RAATTY 1 cut(s) 49
XceI RCATGY 2 cut(s) 154, 359
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.