Rroxscaffold_5G00364040

RNA polymerase II C-terminal domain phosphatase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0004854
Physical Location & Seq
Reverse (-)
45334007 .. 45339902
5896 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00364040.1

Sequence Viewer

Length: 1035 bp
ATGCCTTCTGGAGAGTTGTTAAGAACATCAAGGCGAACATACTGGTTCAAGAATCACTCAAAACGAAGCTCTATAGCTCGAGATATCGAGATCGAACCAAAAGGAGCTCAAAACCGAACATTGTCCTCCGCCGTTGCTGCGCCGGCCGTGTTGCGGTGCAAGGTACTTGATCTTGATCACACGCTACTGCATTCCACTTCACTCAAAAATTTGACTCCCCTAGAAGAATACTTGATCACCAAACCAGATGATCCATCTCTGCACGGTGATGTTTTCATGAATTCTATCATAATAACCAAGTTGAGGCCATTCGTGAGGACATTTCTAAAGGAAGCCAGTCAAATGTTTGAGATGCACATATACACAATGGGCAGTCGAGCTTACGCACTGCAAATGGCTGAGCTGCTTGACCCTGAAAAAGAGTACTTCTTCACCTCCACCTCCAGTTCTAAAATAACATCGCGTGATGATCATAGCTCCCCAGGACAAAAGAAGTGTCTAAATCTTGTGCGTGGCTGTCAAAATTCTAATGTCTTGATCCTCGACGATATAAGAAACACATGGACAAAGAAAAATCAGGACAATTTGATAGTAATGCAAAAGTACTATTTCTTCAAATCCACTTGTCATCTCAATAATGTTACCGGTCAATCTCATGCCGAGTTAAGGACCGATGAAAGCGGTTATCTTGAACACATTCTTCGGTGTCTTAATCGAATCCATGATATCTGGACCAACAATCCTATAGACATTGATGTAATGCAGGTGTTAAAAATTCTTCGGAAGCGGGTGTACGTTGAAGGGCTATACCTAGGTAGCTTGTTAGATCATGGTATACAACATGCCCATACTCCATTGGCCGATGCAAGAAGAAAAGAAAGCATGATTGAAATGAGTAGTGAACTAATGATTTGTTCTGTAGCTCAAGCCGAGGTGACAGGTTACGATTCAATTAAAGCTATAGTCTGTCCGCCATTGTACTTCTTGGGGGATAACTGTGAGTTATCGCACCCTTGGGTGCAACGTACTGCTTAG

Protein Analysis

344

Amino Acids

39.35

Weight (kDa)

8.06

Isoelectric Point (pI)

43.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 55 - 206 3.4e-22 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)
AarI CACCTGC 1 cut(s) 754
Acc36I ACCTGC 1 cut(s) 754
AccI GTMKAC 1 cut(s) 835
AccII CGCG 1 cut(s) 463
AciI CCGC 5 cut(s) 129, 154, 681, 787, 971
AclWI GGATC 2 cut(s) 245, 532
AcoI YGGCCR 2 cut(s) 144, 858
AcsI RAATTY 4 cut(s) 208, 280, 523, 774
AfaI GTAC 6 cut(s) 165, 425, 605, 794, 980, 1027
AfiI CCNNNNNNNGG 3 cut(s) 153, 303, 666
AgeI ACCGGT 1 cut(s) 644
AgsI TTSAA 6 cut(s) 49, 616, 692, 800, 890, 951
AjnI CCWGG 1 cut(s) 481
AluBI AGCT 9 cut(s) 69, 77, 107, 380, 403, 477, 819, 923, 959
AluI AGCT 9 cut(s) 69, 77, 107, 380, 403, 477, 819, 923, 959
Alw21I GWGCWC 1 cut(s) 109
AlwI GGATC 2 cut(s) 245, 532
Ama87I CYCGRG 1 cut(s) 78
AoxI GGCC 3 cut(s) 144, 305, 858
ApeKI GCWGC 2 cut(s) 137, 403
ApoI RAATTY 4 cut(s) 208, 280, 523, 774
ArsI GACNNNNNNTTYG 2 cut(s) 481, 513
AsiGI ACCGGT 1 cut(s) 644
Asp700I GAANNNNTTC 1 cut(s) 696
AspA2I CCTAGG 1 cut(s) 811
AspLEI GCGC 1 cut(s) 142
AspS9I GGNCC 2 cut(s) 669, 732
AsuHPI GGTGA 4 cut(s) 229, 278, 424, 946
AvaI CYCGRG 1 cut(s) 78
AvaII GGWCC 2 cut(s) 669, 732
AvrII CCTAGG 1 cut(s) 811
BanII GRGCYC 1 cut(s) 109
BarI GAAGNNNNNNTAC 4 cut(s) 596, 628, 776, 808
Bbv12I GWGCWC 1 cut(s) 109
BbvI GCAGC 2 cut(s) 124, 390
BccI CCATC 1 cut(s) 262
BceAI ACGGC 2 cut(s) 116, 131
BciT130I CCWGG 1 cut(s) 483
BclI TGATCA 3 cut(s) 175, 234, 469
BfaI CTAG 2 cut(s) 221, 812
BfmI CTRYAG 4 cut(s) 72, 744, 918, 960
BfuAI ACCTGC 1 cut(s) 754
BisI GCNGC 2 cut(s) 138, 404
BlnI CCTAGG 1 cut(s) 811
BlpI GCTNAGC 1 cut(s) 399
BlsI GCNGC 2 cut(s) 139, 405
BmcAI AGTACT 2 cut(s) 425, 605
Bme1390I CCNGG 1 cut(s) 483
Bme18I GGWCC 2 cut(s) 669, 732
BmeT110I CYCGRG 1 cut(s) 78
BmgT120I GGNCC 2 cut(s) 669, 732
BmrFI CCNGG 1 cut(s) 483
BmsI GCATC 2 cut(s) 342, 853
BpmI CTGGAG 2 cut(s) 30, 427
Bpu1102I GCTNAGC 1 cut(s) 399
BpuEI CTTGAG 1 cut(s) 909
BsaBI GATNNNNATC 1 cut(s) 174
BsaJI CCNNGG 4 cut(s) 481, 811, 930, 1013
BsaWI WCCGGW 1 cut(s) 644
Bsc4I CCNNNNNNNGG 3 cut(s) 153, 303, 666
Bse118I RCCGGY 2 cut(s) 142, 644
Bse1I ACTGG 3 cut(s) 47, 336, 444
Bse8I GATNNNNATC 1 cut(s) 174
BseBI CCWGG 1 cut(s) 483
BseDI CCNNGG 4 cut(s) 481, 811, 930, 1013
BseJI GATNNNNATC 1 cut(s) 174
BseLI CCNNNNNNNGG 3 cut(s) 153, 303, 666
BseMII CTCAG 1 cut(s) 390
BseNI ACTGG 3 cut(s) 47, 336, 444
BseX3I CGGCCG 1 cut(s) 144
BseXI GCAGC 2 cut(s) 124, 390
BsgI GTGCAG 1 cut(s) 245
Bsh1236I CGCG 1 cut(s) 463
Bsh1285I CGRYCG 1 cut(s) 147
BshFI GGCC 3 cut(s) 146, 307, 860
BshTI ACCGGT 1 cut(s) 644
BsiEI CGRYCG 1 cut(s) 147
BsiHKAI GWGCWC 1 cut(s) 109
BsiHKCI CYCGRG 1 cut(s) 78
BsiSI CCGG 2 cut(s) 143, 645
BslI CCNNNNNNNGG 3 cut(s) 153, 303, 666
BsmI GAATGC 1 cut(s) 190
BsnI GGCC 3 cut(s) 146, 307, 860
BsoBI CYCGRG 1 cut(s) 78
Bsp1286I GDGCHC 1 cut(s) 109
Bsp143I GATC 8 cut(s) 90, 169, 175, 234, 250, 469, 537, 826
Bsp1720I GCTNAGC 1 cut(s) 399
BspACI CCGC 5 cut(s) 129, 154, 681, 787, 971
BspANI GGCC 3 cut(s) 146, 307, 860
BspCNI CTCAG 1 cut(s) 391
BspFNI CGCG 1 cut(s) 463
BspHI TCATGA 1 cut(s) 276
BspMI ACCTGC 1 cut(s) 754
BspPI GGATC 2 cut(s) 245, 532
BsrFI RCCGGY 2 cut(s) 142, 644
BsrI ACTGG 3 cut(s) 47, 336, 444
BssAI RCCGGY 2 cut(s) 142, 644
BssECI CCNNGG 4 cut(s) 481, 811, 930, 1013
BssMI GATC 8 cut(s) 90, 169, 175, 234, 250, 469, 537, 826
BssNAI GTATAC 1 cut(s) 836
BssT1I CCWWGG 2 cut(s) 811, 1013
Bst1107I GTATAC 1 cut(s) 836
Bst2UI CCWGG 1 cut(s) 483
Bst4CI ACNGT 2 cut(s) 266, 998
BstC8I GCNNGC 1 cut(s) 144
BstDEI CTNAG 2 cut(s) 399, 1032
BstFNI CGCG 1 cut(s) 463
BstHHI GCGC 1 cut(s) 142
BstKTI GATC 8 cut(s) 93, 172, 178, 237, 253, 472, 540, 829
BstMBI GATC 8 cut(s) 90, 169, 175, 234, 250, 469, 537, 826
BstMCI CGRYCG 1 cut(s) 147
BstMWI GCNNNNNNNGC 2 cut(s) 137, 143
BstNI CCWGG 1 cut(s) 483
BstNSI RCATGY 1 cut(s) 845
BstSCI CCNGG 1 cut(s) 481
BstSFI CTRYAG 4 cut(s) 72, 744, 918, 960
BstUI CGCG 1 cut(s) 463
BstV1I GCAGC 2 cut(s) 124, 390
BstZ17I GTATAC 1 cut(s) 836
BstZI CGGCCG 1 cut(s) 144
BsuRI GGCC 3 cut(s) 146, 307, 860
BtgZI GCGATG 1 cut(s) 444
BtsI GCAGTG 1 cut(s) 386
BtsIMutI CAGTG 1 cut(s) 386
BveI ACCTGC 1 cut(s) 754
Cac8I GCNNGC 1 cut(s) 144
CciI TCATGA 1 cut(s) 276
CfoI GCGC 1 cut(s) 142
Cfr10I RCCGGY 2 cut(s) 142, 644
Cfr13I GGNCC 2 cut(s) 669, 732
Csp6I GTAC 6 cut(s) 164, 424, 604, 793, 979, 1026
CspAI ACCGGT 1 cut(s) 644
CviAII CATG 7 cut(s) 277, 561, 656, 722, 830, 842, 883
CviQI GTAC 6 cut(s) 164, 424, 604, 793, 979, 1026
DdeI CTNAG 2 cut(s) 399, 1032
DpnI GATC 8 cut(s) 92, 171, 177, 236, 252, 471, 539, 828
DpnII GATC 8 cut(s) 90, 169, 175, 234, 250, 469, 537, 826
EaeI YGGCCR 2 cut(s) 144, 858
EagI CGGCCG 1 cut(s) 144
EciI GGCGGA 2 cut(s) 118, 960
Ecl136II GAGCTC 1 cut(s) 107
EclXI CGGCCG 1 cut(s) 144
Eco130I CCWWGG 2 cut(s) 811, 1013
Eco24I GRGCYC 1 cut(s) 109
Eco32I GATATC 2 cut(s) 85, 727
Eco47I GGWCC 2 cut(s) 669, 732
Eco52I CGGCCG 1 cut(s) 144
Eco53kI GAGCTC 1 cut(s) 107
Eco88I CYCGRG 1 cut(s) 78
EcoICRI GAGCTC 1 cut(s) 107
EcoRI GAATTC 1 cut(s) 280
EcoRII CCWGG 1 cut(s) 481
EcoRV GATATC 2 cut(s) 85, 727
EcoT14I CCWWGG 2 cut(s) 811, 1013
EcoT38I GRGCYC 1 cut(s) 109
ErhI CCWWGG 2 cut(s) 811, 1013
FaeI CATG 7 cut(s) 280, 564, 659, 725, 833, 845, 886
FatI CATG 7 cut(s) 276, 560, 655, 721, 829, 841, 882
FauI CCCGC 1 cut(s) 780
FbaI TGATCA 3 cut(s) 175, 234, 469
FblI GTMKAC 1 cut(s) 835
Fnu4HI GCNGC 2 cut(s) 138, 404
FriOI GRGCYC 1 cut(s) 109
Fsp4HI GCNGC 2 cut(s) 138, 404
FspBI CTAG 2 cut(s) 221, 812
GlaI GCGC 1 cut(s) 141
GluI GCNGC 2 cut(s) 138, 404
GsuI CTGGAG 2 cut(s) 30, 427
HaeIII GGCC 3 cut(s) 146, 307, 860
HapII CCGG 2 cut(s) 143, 645
HhaI GCGC 1 cut(s) 142
Hin1II CATG 7 cut(s) 280, 564, 659, 725, 833, 845, 886
Hin6I GCGC 1 cut(s) 140
HinP1I GCGC 1 cut(s) 140
HinfI GANTC 4 cut(s) 52, 214, 717, 947
HpaII CCGG 2 cut(s) 143, 645
HphI GGTGA 4 cut(s) 229, 278, 424, 946
Hpy166II GTNNAC 3 cut(s) 793, 836, 902
Hpy188I TCNGA 1 cut(s) 783
Hpy8I GTNNAC 3 cut(s) 793, 836, 902
Hpy99I CGWCG 1 cut(s) 548
HpyAV CCTTC 2 cut(s) 15, 794
HpyCH4III ACNGT 2 cut(s) 266, 998
HpyCH4IV ACGT 2 cut(s) 795, 1024
HpyCH4V TGCA 9 cut(s) 159, 190, 262, 355, 391, 598, 763, 866, 1021
HpyF10VI GCNNNNNNNGC 2 cut(s) 137, 143
HpyF3I CTNAG 2 cut(s) 399, 1032
HpySE526I ACGT 2 cut(s) 795, 1024
Hsp92II CATG 7 cut(s) 280, 564, 659, 725, 833, 845, 886
HspAI GCGC 1 cut(s) 140
KroI GCCGGC 1 cut(s) 142
KroNI GCCGGC 1 cut(s) 144
Ksp22I TGATCA 3 cut(s) 175, 234, 469
Kzo9I GATC 8 cut(s) 90, 169, 175, 234, 250, 469, 537, 826
LmnI GCTCC 2 cut(s) 104, 482
Lsp1109I GCAGC 2 cut(s) 124, 390
LweI GCATC 2 cut(s) 342, 853
MaeI CTAG 2 cut(s) 221, 812
MaeII ACGT 2 cut(s) 795, 1024
MaeIII GTNAC 3 cut(s) 640, 934, 941
MalI GATC 8 cut(s) 92, 171, 177, 236, 252, 471, 539, 828
MboI GATC 8 cut(s) 90, 169, 175, 234, 250, 469, 537, 826
MboII GAAGA 6 cut(s) 236, 421, 604, 692, 770, 882
MhlI GDGCHC 1 cut(s) 109
MluCI AATT 6 cut(s) 208, 280, 523, 583, 774, 951
MlyI GAGTC 1 cut(s) 208
MnlI CCTC 7 cut(s) 136, 297, 309, 445, 451, 551, 925
MroNI GCCGGC 1 cut(s) 142
MroXI GAANNNNTTC 1 cut(s) 696
MseI TTAA 5 cut(s) 20, 665, 711, 770, 954
MslI CAYNNNNRTG 1 cut(s) 267
MspI CCGG 2 cut(s) 143, 645
MspR9I CCNGG 1 cut(s) 483
Mva1269I GAATGC 1 cut(s) 190
MvaI CCWGG 1 cut(s) 483
MvnI CGCG 1 cut(s) 463
MwoI GCNNNNNNNGC 2 cut(s) 137, 143
NaeI GCCGGC 1 cut(s) 144
NdeII GATC 8 cut(s) 90, 169, 175, 234, 250, 469, 537, 826
NgoMIV GCCGGC 1 cut(s) 142
NlaIII CATG 7 cut(s) 280, 564, 659, 725, 833, 845, 886
NmeAIII GCCGAG 2 cut(s) 685, 955
NmuCI GTSAC 1 cut(s) 934
NspI RCATGY 1 cut(s) 845
PaeR7I CTCGAG 1 cut(s) 78
PagI TCATGA 1 cut(s) 276
PaqCI CACCTGC 1 cut(s) 754
PctI GAATGC 1 cut(s) 190
PdiI GCCGGC 1 cut(s) 144
PdmI GAANNNNTTC 1 cut(s) 696
PfeI GAWTC 3 cut(s) 52, 717, 947
PinAI ACCGGT 1 cut(s) 644
PkrI GCNGC 2 cut(s) 139, 405
PleI GAGTC 1 cut(s) 208
PpsI GAGTC 1 cut(s) 208
Psp124BI GAGCTC 1 cut(s) 109
Psp6I CCWGG 1 cut(s) 481
PspGI CCWGG 1 cut(s) 481
PspPI GGNCC 2 cut(s) 669, 732
RsaI GTAC 6 cut(s) 165, 425, 605, 794, 980, 1027
RsaNI GTAC 6 cut(s) 164, 424, 604, 793, 979, 1026
RseI CAYNNNNRTG 1 cut(s) 267
SacI GAGCTC 1 cut(s) 109
SaqAI TTAA 5 cut(s) 20, 665, 711, 770, 954
SatI GCNGC 2 cut(s) 138, 404
Sau3AI GATC 8 cut(s) 90, 169, 175, 234, 250, 469, 537, 826
Sau96I GGNCC 2 cut(s) 669, 732
ScaI AGTACT 2 cut(s) 425, 605
SchI GAGTC 1 cut(s) 208
ScrFI CCNGG 1 cut(s) 483
SduI GDGCHC 1 cut(s) 109
SfaNI GCATC 2 cut(s) 342, 853
SfcI CTRYAG 4 cut(s) 72, 744, 918, 960
Sfr274I CTCGAG 1 cut(s) 78
SinI GGWCC 2 cut(s) 669, 732
SlaI CTCGAG 1 cut(s) 78
SmiMI CAYNNNNRTG 1 cut(s) 267
SmlI CTYRAG 2 cut(s) 78, 924
SmoI CTYRAG 2 cut(s) 78, 924
Sse9I AATT 6 cut(s) 208, 280, 523, 583, 774, 951
SsiI CCGC 5 cut(s) 129, 154, 681, 787, 971
SspMI CTAG 2 cut(s) 221, 812
SstI GAGCTC 1 cut(s) 109
StyD4I CCNGG 1 cut(s) 481
StyI CCWWGG 2 cut(s) 811, 1013
TaaI ACNGT 2 cut(s) 266, 998
TaiI ACGT 2 cut(s) 798, 1027
TaqI TCGA 6 cut(s) 79, 87, 93, 376, 543, 715
TaqII GACCGA 1 cut(s) 686
TasI AATT 6 cut(s) 208, 280, 523, 583, 774, 951
TatI WGTACW 3 cut(s) 423, 603, 978
TfiI GAWTC 3 cut(s) 52, 717, 947
Tru1I TTAA 5 cut(s) 20, 665, 711, 770, 954
Tru9I TTAA 5 cut(s) 20, 665, 711, 770, 954
TscAI CASTG 1 cut(s) 393
TseFI GTSAC 1 cut(s) 934
TseI GCWGC 2 cut(s) 137, 403
Tsp45I GTSAC 1 cut(s) 934
TspDTI ATGAA 3 cut(s) 265, 293, 690
TspRI CASTG 1 cut(s) 393
VpaK11BI GGWCC 2 cut(s) 669, 732
XapI RAATTY 4 cut(s) 208, 280, 523, 774
XceI RCATGY 1 cut(s) 845
XhoI CTCGAG 1 cut(s) 78
XmaJI CCTAGG 1 cut(s) 811
XmiI GTMKAC 1 cut(s) 835
XmnI GAANNNNTTC 1 cut(s) 696
XspI CTAG 2 cut(s) 221, 812
ZrmI AGTACT 2 cut(s) 425, 605
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.