RchiOBHm_Chr5g0012011

Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0006661
Physical Location & Seq
Reverse (-)
7996830 .. 7997330
501 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ29262

Sequence Viewer

Length: 501 bp
ATGACCTTCTACGTGATCAAACGTCCCGGCGTTGACCAGTTTTTGCAAAGACTGGCAGAGAAGTACGAGGTGGTGGTATTCACGGCGGGGATGAGAGAGTACGCCACGCTGGTGGTGGACCGACTGGACAGGCAGGGCGTGATATCCCACAGCCTCTACCGCGACTCATGCAAGGAGATGAACGGAAGGTTAGTGAAGGACCTGTCCGGTTTGGGACGTGACTTGCGGCGAGTGGTGATCGTGGACGATAATCCCAACTCGTATTTCCTCCAACCGGAAAATGGGGTTCCGGTCCGGCCGTTCGTCAATGACATGGGGGACGGGGAGCTGGGGAGGTTGTTGGTGTTTTTTGAGGGAGAGGGGTCACGTTGTTCTGAGGACATTAGAGATGCTGTGAGGGAGTATGTTCATGACAAAGGATGGGTTTCCGATGATAATGACGATGACGAGAATGATGAAGATGATGATAATGGTGGTAGTGATAATGATAATGATGATTAG

Protein Analysis

166

Amino Acids

18.92

Weight (kDa)

4.35

Isoelectric Point (pI)

30.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 2 - 129 8.2e-43 NLI interacting factor-like phosphatase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 162
AciI CCGC 3 cut(s) 86, 160, 226
AcoI YGGCCR 1 cut(s) 296
AfaI GTAC 2 cut(s) 65, 101
AfiI CCNNNNNNNGG 2 cut(s) 274, 281
AjiI CACGTC 1 cut(s) 218
AjuI GAANNNNNNNTTGG 2 cut(s) 248, 280
AleI CACNNNNGTG 1 cut(s) 110
AluBI AGCT 1 cut(s) 328
AluI AGCT 1 cut(s) 328
AoxI GGCC 1 cut(s) 296
AspS9I GGNCC 3 cut(s) 118, 199, 292
AsuC2I CCSGG 1 cut(s) 27
AsuHPI GGTGA 1 cut(s) 247
AvaII GGWCC 3 cut(s) 118, 199, 292
BccI CCATC 1 cut(s) 414
BceAI ACGGC 2 cut(s) 99, 283
BclI TGATCA 1 cut(s) 15
BcnI CCSGG 1 cut(s) 27
BisI GCNGC 1 cut(s) 227
BlsI GCNGC 1 cut(s) 228
Bme1390I CCNGG 1 cut(s) 27
Bme18I GGWCC 3 cut(s) 118, 199, 292
BmgBI CACGTC 1 cut(s) 218
BmgT120I GGNCC 3 cut(s) 118, 199, 292
BmiI GGNNCC 1 cut(s) 288
BmrFI CCNGG 1 cut(s) 27
BmsI GCATC 1 cut(s) 379
BpuMI CCSGG 1 cut(s) 27
BsaAI YACGTR 1 cut(s) 13
BsaWI WCCGGW 3 cut(s) 206, 274, 289
Bsc4I CCNNNNNNNGG 2 cut(s) 274, 281
Bse1I ACTGG 3 cut(s) 37, 57, 129
BseGI GGATG 2 cut(s) 96, 425
BseLI CCNNNNNNNGG 2 cut(s) 274, 281
BseMII CTCAG 1 cut(s) 366
BseNI ACTGG 3 cut(s) 37, 57, 129
BseX3I CGGCCG 1 cut(s) 296
BseYI CCCAGC 1 cut(s) 328
Bsh1236I CGCG 1 cut(s) 162
Bsh1285I CGRYCG 1 cut(s) 299
BshFI GGCC 1 cut(s) 298
BsiEI CGRYCG 1 cut(s) 299
BsiSI CCGG 5 cut(s) 27, 207, 275, 290, 295
BslFI GGGAC 3 cut(s) 9, 228, 332
BslI CCNNNNNNNGG 2 cut(s) 274, 281
BsmFI GGGAC 3 cut(s) 9, 228, 332
BsnI GGCC 1 cut(s) 298
Bsp143I GATC 2 cut(s) 15, 237
BspACI CCGC 3 cut(s) 86, 160, 226
BspANI GGCC 1 cut(s) 298
BspCNI CTCAG 1 cut(s) 367
BspFNI CGCG 1 cut(s) 162
BspHI TCATGA 1 cut(s) 409
BspLI GGNNCC 1 cut(s) 288
BsrI ACTGG 3 cut(s) 37, 57, 129
BssMI GATC 2 cut(s) 15, 237
BstBAI YACGTR 1 cut(s) 13
BstDEI CTNAG 1 cut(s) 375
BstF5I GGATG 2 cut(s) 96, 425
BstFNI CGCG 1 cut(s) 162
BstKTI GATC 2 cut(s) 18, 240
BstMBI GATC 2 cut(s) 15, 237
BstMCI CGRYCG 1 cut(s) 299
BstMWI GCNNNNNNNGC 2 cut(s) 159, 168
BstSCI CCNGG 1 cut(s) 25
BstUI CGCG 1 cut(s) 162
BstXI CCANNNNNNTGG 1 cut(s) 112
BstZI CGGCCG 1 cut(s) 296
BsuRI GGCC 1 cut(s) 298
BtrI CACGTC 1 cut(s) 218
BtsCI GGATG 2 cut(s) 96, 425
CciI TCATGA 1 cut(s) 409
Cfr13I GGNCC 3 cut(s) 118, 199, 292
CpoI CGGWCCG 1 cut(s) 292
Csp6I GTAC 2 cut(s) 64, 100
CspI CGGWCCG 1 cut(s) 292
CviAII CATG 3 cut(s) 168, 313, 410
CviJI RGCY 3 cut(s) 153, 298, 328
CviKI_1 RGCY 3 cut(s) 153, 298, 328
CviQI GTAC 2 cut(s) 64, 100
DdeI CTNAG 1 cut(s) 375
DpnI GATC 2 cut(s) 17, 239
DpnII GATC 2 cut(s) 15, 237
EaeI YGGCCR 1 cut(s) 296
EagI CGGCCG 1 cut(s) 296
EclXI CGGCCG 1 cut(s) 296
Eco32I GATATC 1 cut(s) 144
Eco47I GGWCC 3 cut(s) 118, 199, 292
Eco52I CGGCCG 1 cut(s) 296
EcoO109I RGGNCCY 1 cut(s) 199
EcoRV GATATC 1 cut(s) 144
FaeI CATG 3 cut(s) 171, 316, 413
FaiI YATR 4 cut(s) 169, 314, 405, 411
FaqI GGGAC 3 cut(s) 9, 228, 332
FatI CATG 3 cut(s) 167, 312, 409
FauI CCCGC 1 cut(s) 79
FbaI TGATCA 1 cut(s) 15
Fnu4HI GCNGC 1 cut(s) 227
FokI GGATG 2 cut(s) 103, 432
Fsp4HI GCNGC 1 cut(s) 227
GluI GCNGC 1 cut(s) 227
GsaI CCCAGC 1 cut(s) 332
HaeIII GGCC 1 cut(s) 298
HapII CCGG 5 cut(s) 27, 207, 275, 290, 295
Hin1II CATG 3 cut(s) 171, 316, 413
HincII GTYRAC 1 cut(s) 34
HindII GTYRAC 1 cut(s) 34
HinfI GANTC 1 cut(s) 164
HpaII CCGG 5 cut(s) 27, 207, 275, 290, 295
HphI GGTGA 1 cut(s) 247
Hpy166II GTNNAC 3 cut(s) 34, 118, 244
Hpy188I TCNGA 2 cut(s) 376, 430
Hpy188III TCNNGA 1 cut(s) 410
Hpy8I GTNNAC 3 cut(s) 34, 118, 244
HpyAV CCTTC 3 cut(s) 16, 180, 190
HpyCH4IV ACGT 4 cut(s) 12, 22, 217, 367
HpyCH4V TGCA 2 cut(s) 46, 171
HpyF10VI GCNNNNNNNGC 2 cut(s) 159, 168
HpyF3I CTNAG 1 cut(s) 375
HpySE526I ACGT 4 cut(s) 12, 22, 217, 367
Hsp92II CATG 3 cut(s) 171, 316, 413
Ksp22I TGATCA 1 cut(s) 15
Kzo9I GATC 2 cut(s) 15, 237
LmnI GCTCC 1 cut(s) 325
LweI GCATC 1 cut(s) 379
MaeII ACGT 4 cut(s) 12, 22, 217, 367
MaeIII GTNAC 2 cut(s) 218, 363
MalI GATC 2 cut(s) 17, 239
MboI GATC 2 cut(s) 15, 237
MboII GAAGA 1 cut(s) 470
MlyI GAGTC 1 cut(s) 158
MmeI TCCRAC 1 cut(s) 295
MnlI CCTC 8 cut(s) 61, 164, 278, 327, 346, 352, 370, 390
MslI CAYNNNNRTG 1 cut(s) 110
MspI CCGG 5 cut(s) 27, 207, 275, 290, 295
MspR9I CCNGG 1 cut(s) 27
MvnI CGCG 1 cut(s) 162
MwoI GCNNNNNNNGC 2 cut(s) 159, 168
NciI CCSGG 1 cut(s) 27
NdeII GATC 2 cut(s) 15, 237
NlaIII CATG 3 cut(s) 171, 316, 413
NlaIV GGNNCC 1 cut(s) 288
NmuCI GTSAC 2 cut(s) 218, 363
OliI CACNNNNGTG 1 cut(s) 110
PagI TCATGA 1 cut(s) 409
PkrI GCNGC 1 cut(s) 228
PleI GAGTC 1 cut(s) 158
PpsI GAGTC 1 cut(s) 158
Ppu21I YACGTR 1 cut(s) 13
PpuMI RGGWCCY 1 cut(s) 199
Psp5II RGGWCCY 1 cut(s) 199
PspFI CCCAGC 1 cut(s) 328
PspN4I GGNNCC 1 cut(s) 288
PspPI GGNCC 3 cut(s) 118, 199, 292
PspPPI RGGWCCY 1 cut(s) 199
RsaI GTAC 2 cut(s) 65, 101
RsaNI GTAC 2 cut(s) 64, 100
RseI CAYNNNNRTG 1 cut(s) 110
Rsr2I CGGWCCG 1 cut(s) 292
RsrII CGGWCCG 1 cut(s) 292
SatI GCNGC 1 cut(s) 227
Sau3AI GATC 2 cut(s) 15, 237
Sau96I GGNCC 3 cut(s) 118, 199, 292
SchI GAGTC 1 cut(s) 158
ScrFI CCNGG 1 cut(s) 27
SfaNI GCATC 1 cut(s) 379
SinI GGWCC 3 cut(s) 118, 199, 292
SmiMI CAYNNNNRTG 1 cut(s) 110
SsiI CCGC 3 cut(s) 86, 160, 226
StyD4I CCNGG 1 cut(s) 25
TaiI ACGT 4 cut(s) 15, 25, 220, 370
TaqII GACCGA 1 cut(s) 135
TauI GCSGC 1 cut(s) 229
TseFI GTSAC 2 cut(s) 218, 363
Tsp45I GTSAC 2 cut(s) 218, 363
TspDTI ATGAA 3 cut(s) 194, 398, 471
TspGWI ACGGA 1 cut(s) 198
VpaK11BI GGWCC 3 cut(s) 118, 199, 292
XcmI CCANNNNNNNNNTGG 2 cut(s) 112, 278
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.