Rroxscaffold_3G00238920

Ubiquitin-like domain-containing CTD

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0009260
Physical Location & Seq
Reverse (-)
27313790 .. 27317099
3310 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00238920.1

Sequence Viewer

Length: 1059 bp
ATGGCAGAAGAGGAGCTAACGTTGACAGTCAAGTGGAGCGGGAAGGAGTACACGGTTCGAGTATGCGGCGACGACACTGTGGGTGAGCTCAAACGCCGAATCTGCCAACTCACCACCGTCTTGCCCAAACGCCAGAAGCTTCTGTACCCCAAACTCCTGCCTTCCAAACTCGCCGACGACGCCGTTTTGCTTTCCTCTCTCCCTTTCAAGTCCTCAGTCAAATTGACCATGATTGGTTCGATGGAGGATGATATTATAGTGGATCCCGTCGACTCTCCTGACATTGTTGATGACTTTGAGCTCGGCCAAGATGAGGCTGTCGATATCAAGGATAATCATGTTAATAACCAGAAATTGAGGAGGCGTATAGATCATTACAAGATTGAACTTAAGAATCCCTGCCGCCAAGGAAAGAAGCTGCTTGTGCTGGATATTGATTATACTCTCTTTGATCATCGGTCCACAGCAGAGAACCCACTTCAACTTATGCGACCTTATCTTCATGAGTTTCTGACAGCTGCTTATGCGGAATATGATATTATGATATGGTCTGCAACCAGCATCAAATGGGTTGAATTGAAGATGGGACAGCTTGGGGTACTCAACAATCCCAACTACAAAATCACTGCTCTTCTAGACCATTTAGCAATGATTACCGTTCAGTCAGATTCGCGTGGAATCTTTGATTGCAAGCCACTAGGCTTAATCTGGGCTCAATTTCCTGAGAACTATGAACAGTATGAAAGTATTGCATTTTCCCATTTTCGTCCAACCATCAATGTGGTGATGTTTAGCCGTTTCATGTTATTTTCAGTTCTACAGTTCAAAAACACTATAATGTTTGATGATCTGCGAAGAAATTTTGTGATGAACCCACAAAATGGTTTGATCATCAAGCCGTTCAGGAAGGCCCATTCTAGCCGAGACAGTGATCAGGAGCTTATCAAACTCACATCATATTTGCTTGCCATTGCGGAACTTGATGATTTGAGCGCCCTTGATCATAATTCCTGGCAGTCATTTACTGAGGACAATGTCAAAAGACGTCGGCATGAATGA
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
NIF ubiquitin

Protein Analysis

352

Amino Acids

40.81

Weight (kDa)

5.9

Isoelectric Point (pI)

41.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ubiquitin PF00240 8 - 49 6.3e-08 Ubiquitin family
NIF PF03031 139 - 205 1.8e-09 NLI interacting factor-like phosphatase
NIF PF03031 275 - 330 6.4e-08 NLI interacting factor-like phosphatase
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 1048
AccB7I CCANNNNNTGG 1 cut(s) 881
AccBSI CCGCTC 1 cut(s) 39
AccI GTMKAC 1 cut(s) 270
AccII CGCG 1 cut(s) 673
AciI CCGC 5 cut(s) 39, 66, 403, 527, 974
AclI AACGTT 1 cut(s) 20
AclWI GGATC 2 cut(s) 257, 270
AcoI YGGCCR 1 cut(s) 304
AcsI RAATTY 1 cut(s) 859
AcyI GRCGYC 2 cut(s) 180, 1045
AfaI GTAC 3 cut(s) 50, 146, 600
AfiI CCNNNNNNNGG 2 cut(s) 313, 881
AflII CTTAAG 1 cut(s) 389
AgsI TTSAA 6 cut(s) 208, 386, 482, 575, 580, 826
AjnI CCWGG 1 cut(s) 1010
AluBI AGCT 8 cut(s) 16, 88, 139, 301, 418, 518, 592, 940
AluI AGCT 8 cut(s) 16, 88, 139, 301, 418, 518, 592, 940
Alw21I GWGCWC 2 cut(s) 90, 303
Alw26I GTCTC 1 cut(s) 918
AlwI GGATC 2 cut(s) 257, 270
AoxI GGCC 2 cut(s) 304, 909
ApeKI GCWGC 2 cut(s) 418, 518
ApoI RAATTY 1 cut(s) 859
AspLEI GCGC 1 cut(s) 995
AspS9I GGNCC 2 cut(s) 459, 910
AsuHPI GGTGA 3 cut(s) 95, 103, 796
AvaII GGWCC 1 cut(s) 459
BamHI GGATCC 1 cut(s) 262
BanII GRGCYC 3 cut(s) 90, 303, 715
BarI GAAGNNNNNNTAC 2 cut(s) 128, 160
Bbv12I GWGCWC 2 cut(s) 90, 303
BbvI GCAGC 2 cut(s) 405, 505
BccI CCATC 3 cut(s) 235, 577, 782
BceAI ACGGC 3 cut(s) 167, 780, 883
BciT130I CCWGG 1 cut(s) 1012
BclI TGATCA 4 cut(s) 451, 888, 931, 1000
BcoDI GTCTC 1 cut(s) 918
BfaI CTAG 3 cut(s) 635, 698, 918
BfmI CTRYAG 1 cut(s) 818
BfoI RGCGCY 1 cut(s) 996
BfrI CTTAAG 1 cut(s) 389
BisI GCNGC 4 cut(s) 67, 403, 419, 519
BlsI GCNGC 4 cut(s) 68, 404, 420, 520
Bme1390I CCNGG 1 cut(s) 1012
Bme18I GGWCC 1 cut(s) 459
BmgT120I GGNCC 2 cut(s) 459, 910
BmiI GGNNCC 1 cut(s) 264
BmrFI CCNGG 1 cut(s) 1012
BmsI GCATC 1 cut(s) 570
BsaHI GRCGYC 2 cut(s) 180, 1045
BsaJI CCNNGG 1 cut(s) 406
BsaXI ACNNNNNCTCC 2 cut(s) 5, 35
Bsc4I CCNNNNNNNGG 2 cut(s) 313, 881
Bse3DI GCAATG 2 cut(s) 654, 969
BseBI CCWGG 1 cut(s) 1012
BseDI CCNNGG 1 cut(s) 406
BseGI GGATG 1 cut(s) 253
BseLI CCNNNNNNNGG 2 cut(s) 313, 881
BseMI GCAATG 2 cut(s) 654, 969
BseMII CTCAG 3 cut(s) 228, 714, 1017
BseRI GAGGAG 2 cut(s) 26, 373
BseXI GCAGC 2 cut(s) 405, 505
Bsh1236I CGCG 1 cut(s) 673
BshFI GGCC 2 cut(s) 306, 911
BsiHKAI GWGCWC 2 cut(s) 90, 303
BslFI GGGAC 1 cut(s) 600
BslI CCNNNNNNNGG 2 cut(s) 313, 881
BsmAI GTCTC 1 cut(s) 918
BsmFI GGGAC 1 cut(s) 600
BsnI GGCC 2 cut(s) 306, 911
Bsp1286I GDGCHC 3 cut(s) 90, 303, 715
Bsp143I GATC 7 cut(s) 262, 370, 451, 847, 888, 931, 1000
BspACI CCGC 5 cut(s) 39, 66, 403, 527, 974
BspANI GGCC 2 cut(s) 306, 911
BspCNI CTCAG 3 cut(s) 227, 715, 1018
BspFNI CGCG 1 cut(s) 673
BspHI TCATGA 1 cut(s) 502
BspLI GGNNCC 1 cut(s) 264
BspPI GGATC 2 cut(s) 257, 270
BspQI GCTCTTC 1 cut(s) 636
BspTI CTTAAG 1 cut(s) 389
BsrBI CCGCTC 1 cut(s) 39
BsrDI GCAATG 2 cut(s) 654, 969
BssECI CCNNGG 1 cut(s) 406
BssMI GATC 7 cut(s) 262, 370, 451, 847, 888, 931, 1000
BssNI GRCGYC 2 cut(s) 180, 1045
BssT1I CCWWGG 1 cut(s) 406
Bst2UI CCWGG 1 cut(s) 1012
Bst4CI ACNGT 8 cut(s) 28, 55, 79, 118, 658, 738, 822, 929
Bst6I CTCTTC 2 cut(s) 3, 636
BstACI GRCGYC 2 cut(s) 180, 1045
BstAFI CTTAAG 1 cut(s) 389
BstC8I GCNNGC 2 cut(s) 692, 966
BstDEI CTNAG 3 cut(s) 214, 723, 1026
BstF5I GGATG 1 cut(s) 253
BstFNI CGCG 1 cut(s) 673
BstH2I RGCGCY 1 cut(s) 996
BstHHI GCGC 1 cut(s) 995
BstKTI GATC 7 cut(s) 265, 373, 454, 850, 891, 934, 1003
BstMAI GTCTC 1 cut(s) 918
BstMBI GATC 7 cut(s) 262, 370, 451, 847, 888, 931, 1000
BstMWI GCNNNNNNNGC 4 cut(s) 102, 179, 424, 524
BstNI CCWGG 1 cut(s) 1012
BstSCI CCNGG 1 cut(s) 1010
BstSFI CTRYAG 1 cut(s) 818
BstUI CGCG 1 cut(s) 673
BstV1I GCAGC 2 cut(s) 405, 505
BstX2I RGATCY 1 cut(s) 262
BstXI CCANNNNNNTGG 1 cut(s) 781
BstYI RGATCY 1 cut(s) 262
BsuRI GGCC 2 cut(s) 306, 911
BtsCI GGATG 1 cut(s) 253
BtsI GCAGTG 1 cut(s) 624
BtsIMutI CAGTG 3 cut(s) 75, 624, 934
Cac8I GCNNGC 2 cut(s) 692, 966
CciI TCATGA 1 cut(s) 502
CfoI GCGC 1 cut(s) 995
Cfr13I GGNCC 2 cut(s) 459, 910
CseI GACGC 1 cut(s) 188
Csp6I GTAC 3 cut(s) 49, 145, 599
CviAII CATG 5 cut(s) 229, 338, 503, 802, 1052
CviQI GTAC 3 cut(s) 49, 145, 599
DdeI CTNAG 3 cut(s) 214, 723, 1026
DpnI GATC 7 cut(s) 264, 372, 453, 849, 890, 933, 1002
DpnII GATC 7 cut(s) 262, 370, 451, 847, 888, 931, 1000
EaeI YGGCCR 1 cut(s) 304
Eam1104I CTCTTC 2 cut(s) 3, 636
EarI CTCTTC 2 cut(s) 3, 636
Ecl136II GAGCTC 2 cut(s) 88, 301
Eco130I CCWWGG 1 cut(s) 406
Eco24I GRGCYC 3 cut(s) 90, 303, 715
Eco32I GATATC 1 cut(s) 325
Eco47I GGWCC 1 cut(s) 459
Eco53kI GAGCTC 2 cut(s) 88, 301
EcoICRI GAGCTC 2 cut(s) 88, 301
EcoRII CCWGG 1 cut(s) 1010
EcoRV GATATC 1 cut(s) 325
EcoT14I CCWWGG 1 cut(s) 406
EcoT38I GRGCYC 3 cut(s) 90, 303, 715
ErhI CCWWGG 1 cut(s) 406
FaeI CATG 5 cut(s) 232, 341, 506, 805, 1055
FaqI GGGAC 1 cut(s) 600
FatI CATG 5 cut(s) 228, 337, 502, 801, 1051
FauI CCCGC 1 cut(s) 32
FbaI TGATCA 4 cut(s) 451, 888, 931, 1000
FblI GTMKAC 1 cut(s) 270
Fnu4HI GCNGC 4 cut(s) 67, 403, 419, 519
FokI GGATG 1 cut(s) 260
FriOI GRGCYC 3 cut(s) 90, 303, 715
Fsp4HI GCNGC 4 cut(s) 67, 403, 419, 519
FspBI CTAG 3 cut(s) 635, 698, 918
GlaI GCGC 1 cut(s) 994
GluI GCNGC 4 cut(s) 67, 403, 419, 519
HaeII RGCGCY 1 cut(s) 996
HaeIII GGCC 2 cut(s) 306, 911
HgaI GACGC 1 cut(s) 188
HhaI GCGC 1 cut(s) 995
Hin1I GRCGYC 2 cut(s) 180, 1045
Hin1II CATG 5 cut(s) 232, 341, 506, 805, 1055
Hin6I GCGC 1 cut(s) 993
HinP1I GCGC 1 cut(s) 993
HincII GTYRAC 2 cut(s) 24, 271
HindII GTYRAC 2 cut(s) 24, 271
HindIII AAGCTT 1 cut(s) 137
HinfI GANTC 5 cut(s) 99, 272, 394, 668, 678
HphI GGTGA 3 cut(s) 95, 103, 796
Hpy166II GTNNAC 4 cut(s) 24, 51, 271, 462
Hpy188I TCNGA 2 cut(s) 513, 667
Hpy188III TCNNGA 6 cut(s) 278, 503, 635, 722, 904, 935
Hpy8I GTNNAC 4 cut(s) 24, 51, 271, 462
Hpy99I CGWCG 5 cut(s) 74, 179, 182, 272, 1050
HpyAV CCTTC 3 cut(s) 37, 171, 901
HpyCH4III ACNGT 8 cut(s) 28, 55, 79, 118, 658, 738, 822, 929
HpyCH4IV ACGT 2 cut(s) 20, 1045
HpyCH4V TGCA 3 cut(s) 554, 690, 752
HpyF10VI GCNNNNNNNGC 4 cut(s) 102, 179, 424, 524
HpyF3I CTNAG 3 cut(s) 214, 723, 1026
HpySE526I ACGT 2 cut(s) 20, 1045
Hsp92I GRCGYC 2 cut(s) 180, 1045
Hsp92II CATG 5 cut(s) 232, 341, 506, 805, 1055
HspAI GCGC 1 cut(s) 993
Ksp22I TGATCA 4 cut(s) 451, 888, 931, 1000
Kzo9I GATC 7 cut(s) 262, 370, 451, 847, 888, 931, 1000
LguI GCTCTTC 1 cut(s) 636
LmnI GCTCC 3 cut(s) 13, 36, 937
Lsp1109I GCAGC 2 cut(s) 405, 505
LweI GCATC 1 cut(s) 570
MaeI CTAG 3 cut(s) 635, 698, 918
MaeII ACGT 2 cut(s) 20, 1045
MalI GATC 7 cut(s) 264, 372, 453, 849, 890, 933, 1002
MbiI CCGCTC 1 cut(s) 39
MboI GATC 7 cut(s) 262, 370, 451, 847, 888, 931, 1000
MboII GAAGA 5 cut(s) 20, 491, 592, 623, 867
MflI RGATCY 1 cut(s) 262
MhlI GDGCHC 3 cut(s) 90, 303, 715
MluCI AATT 6 cut(s) 221, 353, 575, 716, 859, 1006
MlyI GAGTC 1 cut(s) 266
MmeI TCCRAC 1 cut(s) 794
MnlI CCTC 8 cut(s) 4, 205, 223, 238, 307, 351, 354, 1021
MseI TTAA 3 cut(s) 342, 390, 704
MslI CAYNNNNRTG 2 cut(s) 779, 836
MspA1I CMGCKG 1 cut(s) 518
MspCI CTTAAG 1 cut(s) 389
MspR9I CCNGG 1 cut(s) 1012
MvaI CCWGG 1 cut(s) 1012
MvnI CGCG 1 cut(s) 673
MwoI GCNNNNNNNGC 4 cut(s) 102, 179, 424, 524
NdeII GATC 7 cut(s) 262, 370, 451, 847, 888, 931, 1000
NlaIII CATG 5 cut(s) 232, 341, 506, 805, 1055
NlaIV GGNNCC 1 cut(s) 264
NmeAIII GCCGAG 2 cut(s) 282, 947
PagI TCATGA 1 cut(s) 502
PciSI GCTCTTC 1 cut(s) 636
PfeI GAWTC 4 cut(s) 99, 394, 668, 678
PflFI GACNNNGTC 1 cut(s) 1034
PflMI CCANNNNNTGG 1 cut(s) 881
PkrI GCNGC 4 cut(s) 68, 404, 420, 520
PleI GAGTC 1 cut(s) 266
PpsI GAGTC 1 cut(s) 266
Psp124BI GAGCTC 2 cut(s) 90, 303
Psp1406I AACGTT 1 cut(s) 20
Psp6I CCWGG 1 cut(s) 1010
PspGI CCWGG 1 cut(s) 1010
PspN4I GGNNCC 1 cut(s) 264
PspPI GGNCC 2 cut(s) 459, 910
PsuI RGATCY 1 cut(s) 262
PsyI GACNNNGTC 1 cut(s) 1034
PvuII CAGCTG 1 cut(s) 518
RsaI GTAC 3 cut(s) 50, 146, 600
RsaNI GTAC 3 cut(s) 49, 145, 599
RseI CAYNNNNRTG 2 cut(s) 779, 836
SacI GAGCTC 2 cut(s) 90, 303
SalI GTCGAC 1 cut(s) 269
SapI GCTCTTC 1 cut(s) 636
SaqAI TTAA 3 cut(s) 342, 390, 704
SatI GCNGC 4 cut(s) 67, 403, 419, 519
Sau3AI GATC 7 cut(s) 262, 370, 451, 847, 888, 931, 1000
Sau96I GGNCC 2 cut(s) 459, 910
SchI GAGTC 1 cut(s) 266
ScrFI CCNGG 1 cut(s) 1012
SduI GDGCHC 3 cut(s) 90, 303, 715
SfaNI GCATC 1 cut(s) 570
SfcI CTRYAG 1 cut(s) 818
SinI GGWCC 1 cut(s) 459
SmiMI CAYNNNNRTG 2 cut(s) 779, 836
SmlI CTYRAG 1 cut(s) 389
SmoI CTYRAG 1 cut(s) 389
Sse9I AATT 6 cut(s) 221, 353, 575, 716, 859, 1006
SsiI CCGC 5 cut(s) 39, 66, 403, 527, 974
SspMI CTAG 3 cut(s) 635, 698, 918
SstI GAGCTC 2 cut(s) 90, 303
StyD4I CCNGG 1 cut(s) 1010
StyI CCWWGG 1 cut(s) 406
TaaI ACNGT 8 cut(s) 28, 55, 79, 118, 658, 738, 822, 929
TaiI ACGT 2 cut(s) 23, 1048
TaqI TCGA 4 cut(s) 58, 239, 270, 321
TaqII GACCGA 1 cut(s) 447
TasI AATT 6 cut(s) 221, 353, 575, 716, 859, 1006
TatI WGTACW 1 cut(s) 48
TauI GCSGC 2 cut(s) 69, 405
TfiI GAWTC 4 cut(s) 99, 394, 668, 678
Tru1I TTAA 3 cut(s) 342, 390, 704
Tru9I TTAA 3 cut(s) 342, 390, 704
TscAI CASTG 3 cut(s) 82, 631, 934
TseI GCWGC 2 cut(s) 418, 518
TspDTI ATGAA 5 cut(s) 491, 747, 756, 790, 884
TspRI CASTG 3 cut(s) 82, 631, 934
Tth111I GACNNNGTC 1 cut(s) 1034
Van91I CCANNNNNTGG 1 cut(s) 881
Vha464I CTTAAG 1 cut(s) 389
VpaK11BI GGWCC 1 cut(s) 459
XapI RAATTY 1 cut(s) 859
XbaI TCTAGA 1 cut(s) 634
XmiI GTMKAC 1 cut(s) 270
XspI CTAG 3 cut(s) 635, 698, 918
ZraI GACGTC 1 cut(s) 1046
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.