Rh3DG162100

Belongs to the CRISP family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0018175
Physical Location & Seq
Forward (+)
14083047 .. 14084926
1880 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG162100.1

Sequence Viewer

Length: 1548 bp
ATGCCTCCCCCGGGTCGAGCAGCCGTCGCTGCAATCCTCATATTCTGTCTCCTCCTCCTCAACAATGTTTCCGCCACCGAGCACACCTACATTGCCTCGCAGCAGGTGACGGCGCAGGACTTCCTCCAGGCCCACAACGAGGTCAGGGCCATGTTCAACGAGCCGATGCTAACGTGGGATGAGAAGCTGGCTGACTACGCCCACCAGTGGGCTGAGAAGACCAGCGCCCTAGGGAAATGCGAGGAGCGGTACCACTCCAACGGCCCCTATGGCGAGAACCTCTTTTGGGGGTGGTCGTGGAACGACTACTTTAGCCCTAGAGACGCCGTCATGATGTGGACCGAGGAGAAAAACGACTTCGACGTCAAGTCGTTGATGTGCACACCGGGGAAAATGTGCGGCCACTTCACGCAGGTCGTGTGGAGGAACTCCAAGAGAGTAGGGTGCAGCCGGATCAAGTGCGCCCAAGGTGGAGTGTTGATGATTTGTAATTATGATCCTCCTGGTAATTGGATTGATTCGAAACTTGGAGGTCTCATGAATCCCTTCGGCGAGGATAAGACGACAATGCCGCCTGTTTCGACTGAACAAGTGGAGCAAGCAGTGCCACTTGTTTCGGCTGAACAAGTGGCGCAGGTAGTACCGCATGTTGTTCAGCCGAAAGTGCCGCAACCGGTGCCGGCTGACGGTCATCCGACAGTGCCGCACCCGGTGCCGGCTGACGGTCATCCGACAGTGCCGCACCCGGTGCCGGCTGACGGTCATCCGACAGTGCCGCACCCGGTGCCGGCTGACGGTCATCCGACAGTGCCGCACCCGGTGCAGGGTGACGGTCATCGGACAGTGCCGCACCCTCTGCCGGCTGACGGGACAGTGCCGCACCCGGTGCCTGTTGACGATCATCGGACAGTGCCGCACCCTATGCCGGCTGACGGGACAGTGCCGCACCCGGTGCCTGTTGATGATCATCGAACAGTGCCGCACCCTGTGCCGGCTGACGGTCATCCGACAGTGCCGCACCCGGTGCCGGCTAAAGGTCATCCGACACTGCCGCACCCTGTGCCGGCTGACGGTCATCCGACACTGCCTCACCCGGTGCCAGCTGACGGTCATCCGACAGTGCCGCAGCCGGTGCCGGTTGACGGTCATCCGACAGTGCCGCACCCTGTGCCGGCTGACGGGATAGTGCCGCACCCTGTGCAGGCTGACGGTCATCCGACAGTGCCTCACACGGTGCTGGCTGAAGGTCATCCGACACTGCCGCACCCTGTGCCGGCTGACGGTCATCAGACAGTGCCTCACCCGGTGCCGGCTGAACATCAGCCGACATTCTCCCGACCGCCGCCGTCTGGCGGAGAGTTGCCTAAGAAAGGAAGAGGAAGAAATAGAAGGGGTCAAGGGAGAGGAGGTCATCATCCTGGTCGTGCTAAACCTAACCAGAACCGTAGTCATCGTAACCGTAACCGCAACCATCACCACCTTAGCCCCCGCCAGCGCTATCTTAATCGCATCGGTCGACGTCGTCAACGTGATAATCGTAAACCGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04016 ko04075 ko04626 map04016 map04075 map04626
Pfam Domains
Protein Families
CAP

Protein Analysis

515

Amino Acids

56.21

Weight (kDa)

7.35

Isoelectric Point (pI)

51.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CAP PF00188 42 - 165 2.4e-19 Cysteine-rich secretory protein family
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: OG0018175)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr3g0468031
rosa_laevigata RLG00000024457
rosa_multiflora Rmu_co8380321.1_g000001
rosa_roxburghii Rroxscaffold_6G00413160
rosa_rugosa Rorug03G0091600 Rorug03G0091700 Rorug03G0091800
rosa_samantha Rh3BG161600 Rh3CG161600 Rh3DG162100
rosa_wichuraiana Rw3G013250

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 94
AasI GACNNNNNNGTC 1 cut(s) 362
AatII GACGTC 2 cut(s) 366, 1522
Acc36I ACCTGC 3 cut(s) 94, 403, 625
Acc65I GGTACC 1 cut(s) 249
AccBSI CCGCTC 1 cut(s) 247
AccI GTMKAC 1 cut(s) 1516
AclWI GGATC 2 cut(s) 461, 491
AcoI YGGCCR 1 cut(s) 400
AcuI CTGAAG 1 cut(s) 1263
AcyI GRCGYC 3 cut(s) 324, 363, 1519
AfaI GTAC 2 cut(s) 251, 642
AfeI AGCGCT 1 cut(s) 1496
AgeI ACCGGT 1 cut(s) 673
AgsI TTSAA 1 cut(s) 157
AhdI GACNNNNNGTC 1 cut(s) 367
AjnI CCWGG 3 cut(s) 126, 502, 1417
AluBI AGCT 2 cut(s) 187, 1103
AluI AGCT 2 cut(s) 187, 1103
Alw21I GWGCWC 2 cut(s) 84, 383
Alw26I GTCTC 3 cut(s) 53, 315, 539
Alw44I GTGCAC 1 cut(s) 379
AlwI GGATC 2 cut(s) 461, 491
Ama87I CYCGRG 1 cut(s) 10
Aor51HI AGCGCT 1 cut(s) 1496
AoxI GGCC 4 cut(s) 129, 147, 262, 400
ApaLI GTGCAC 1 cut(s) 379
ApeKI GCWGC 5 cut(s) 20, 29, 100, 447, 1126
AsiGI ACCGGT 1 cut(s) 673
Asp700I GAANNNNTTC 1 cut(s) 545
Asp718I GGTACC 1 cut(s) 249
AspA2I CCTAGG 1 cut(s) 229
AspLEI GCGC 5 cut(s) 115, 227, 464, 634, 1497
AspS9I GGNCC 4 cut(s) 130, 147, 263, 339
AsuHPI GGTGA 5 cut(s) 118, 839, 1082, 1292, 1466
AsuII TTCGAA 1 cut(s) 521
AvaI CYCGRG 1 cut(s) 10
AvaII GGWCC 1 cut(s) 339
AvrII CCTAGG 1 cut(s) 229
BaeGI GKGCMC 1 cut(s) 383
BbsI GAAGAC 1 cut(s) 224
Bbv12I GWGCWC 2 cut(s) 84, 383
BbvI GCAGC 5 cut(s) 16, 32, 112, 459, 1138
BccI CCATC 1 cut(s) 1479
BceAI ACGGC 5 cut(s) 8, 126, 277, 311, 1330
BciT130I CCWGG 3 cut(s) 128, 504, 1419
BclI TGATCA 1 cut(s) 964
BcoDI GTCTC 3 cut(s) 53, 315, 539
BfaI CTAG 2 cut(s) 230, 318
BfoI RGCGCY 2 cut(s) 228, 1498
BfuAI ACCTGC 3 cut(s) 94, 403, 625
BglI GCCNNNNNGGC 1 cut(s) 270
BlnI CCTAGG 1 cut(s) 229
Bme18I GGWCC 1 cut(s) 339
BmeRI GACNNNNNGTC 1 cut(s) 367
BmeT110I CYCGRG 1 cut(s) 10
BmgT120I GGNCC 4 cut(s) 130, 147, 263, 339
BmsI GCATC 2 cut(s) 156, 1518
BpiI GAAGAC 1 cut(s) 224
BpmI CTGGAG 1 cut(s) 110
Bpu10I CCTNAGC 1 cut(s) 1481
Bpu14I TTCGAA 1 cut(s) 521
BsaBI GATNNNNATC 1 cut(s) 966
BsaHI GRCGYC 3 cut(s) 324, 363, 1519
BsaI GGTCTC 1 cut(s) 539
BsaJI CCNNGG 6 cut(s) 9, 10, 229, 342, 386, 466
BsaWI WCCGGW 1 cut(s) 673
BsaXI ACNNNNNCTCC 2 cut(s) 1393, 1423
Bse1I ACTGG 1 cut(s) 205
Bse3DI GCAATG 1 cut(s) 90
Bse8I GATNNNNATC 1 cut(s) 966
BseBI CCWGG 3 cut(s) 128, 504, 1419
BseDI CCNNGG 6 cut(s) 9, 10, 229, 342, 386, 466
BseJI GATNNNNATC 1 cut(s) 966
BseMI GCAATG 1 cut(s) 90
BseMII CTCAG 1 cut(s) 204
BseNI ACTGG 1 cut(s) 205
BseRI GAGGAG 6 cut(s) 41, 44, 47, 257, 359, 1419
BseSI GKGCMC 1 cut(s) 383
BseXI GCAGC 5 cut(s) 16, 32, 112, 459, 1138
BsgI GTGCAG 3 cut(s) 466, 842, 1220
Bsh1285I CGRYCG 2 cut(s) 1340, 1516
BshFI GGCC 4 cut(s) 131, 149, 264, 402
BshTI ACCGGT 1 cut(s) 673
BsiEI CGRYCG 2 cut(s) 1340, 1516
BsiHKAI GWGCWC 2 cut(s) 84, 383
BsiHKCI CYCGRG 1 cut(s) 10
BslFI GGGAC 2 cut(s) 883, 949
BsmAI GTCTC 3 cut(s) 53, 315, 539
BsmBI CGTCTC 1 cut(s) 315
BsmFI GGGAC 2 cut(s) 883, 949
BsnI GGCC 4 cut(s) 131, 149, 264, 402
Bso31I GGTCTC 1 cut(s) 539
BsoBI CYCGRG 1 cut(s) 10
Bsp119I TTCGAA 1 cut(s) 521
Bsp1286I GDGCHC 2 cut(s) 84, 383
Bsp143I GATC 4 cut(s) 453, 496, 898, 964
BspANI GGCC 4 cut(s) 131, 149, 264, 402
BspCNI CTCAG 1 cut(s) 205
BspHI TCATGA 2 cut(s) 330, 537
BspMI ACCTGC 3 cut(s) 94, 403, 625
BspPI GGATC 2 cut(s) 461, 491
BspT104I TTCGAA 1 cut(s) 521
BspTNI GGTCTC 1 cut(s) 539
BsrBI CCGCTC 1 cut(s) 247
BsrDI GCAATG 1 cut(s) 90
BsrI ACTGG 1 cut(s) 205
BssECI CCNNGG 6 cut(s) 9, 10, 229, 342, 386, 466
BssMI GATC 4 cut(s) 453, 496, 898, 964
BssNI GRCGYC 3 cut(s) 324, 363, 1519
BssT1I CCWWGG 2 cut(s) 229, 466
Bst2UI CCWGG 3 cut(s) 128, 504, 1419
Bst6I CTCTTC 1 cut(s) 1369
BstACI GRCGYC 3 cut(s) 324, 363, 1519
BstBI TTCGAA 1 cut(s) 521
BstDEI CTNAG 3 cut(s) 213, 1365, 1481
BstENI CCTNNNNNAGG 1 cut(s) 1368
BstH2I RGCGCY 2 cut(s) 228, 1498
BstHHI GCGC 5 cut(s) 115, 227, 464, 634, 1497
BstKTI GATC 4 cut(s) 456, 499, 901, 967
BstMAI GTCTC 3 cut(s) 53, 315, 539
BstMBI GATC 4 cut(s) 453, 496, 898, 964
BstMCI CGRYCG 2 cut(s) 1340, 1516
BstNI CCWGG 3 cut(s) 128, 504, 1419
BstNSI RCATGY 1 cut(s) 650
BstSLI GKGCMC 1 cut(s) 383
BstV1I GCAGC 5 cut(s) 16, 32, 112, 459, 1138
BstV2I GAAGAC 1 cut(s) 224
BsuRI GGCC 4 cut(s) 131, 149, 264, 402
BtsI GCAGTG 4 cut(s) 609, 1046, 1082, 1256
BveI ACCTGC 3 cut(s) 94, 403, 625
CciI TCATGA 2 cut(s) 330, 537
CfoI GCGC 5 cut(s) 115, 227, 464, 634, 1497
Cfr13I GGNCC 4 cut(s) 130, 147, 263, 339
Cfr9I CCCGGG 1 cut(s) 10
CseI GACGC 1 cut(s) 332
Csp6I GTAC 2 cut(s) 250, 641
CspAI ACCGGT 1 cut(s) 673
CviAII CATG 4 cut(s) 151, 331, 538, 647
CviQI GTAC 2 cut(s) 250, 641
DdeI CTNAG 3 cut(s) 213, 1365, 1481
DpnI GATC 4 cut(s) 455, 498, 900, 966
DpnII GATC 4 cut(s) 453, 496, 898, 964
DrdI GACNNNNNNGTC 1 cut(s) 362
DriI GACNNNNNGTC 1 cut(s) 367
DseDI GACNNNNNNGTC 1 cut(s) 362
EaeI YGGCCR 1 cut(s) 400
Eam1104I CTCTTC 1 cut(s) 1369
Eam1105I GACNNNNNGTC 1 cut(s) 367
EarI CTCTTC 1 cut(s) 1369
EciI GGCGGA 2 cut(s) 61, 1368
Eco130I CCWWGG 2 cut(s) 229, 466
Eco31I GGTCTC 1 cut(s) 539
Eco47I GGWCC 1 cut(s) 339
Eco47III AGCGCT 1 cut(s) 1496
Eco57I CTGAAG 1 cut(s) 1263
Eco88I CYCGRG 1 cut(s) 10
EcoNI CCTNNNNNAGG 1 cut(s) 1368
EcoRII CCWGG 3 cut(s) 126, 502, 1417
EcoT14I CCWWGG 2 cut(s) 229, 466
ErhI CCWWGG 2 cut(s) 229, 466
Esp3I CGTCTC 1 cut(s) 315
FaeI CATG 4 cut(s) 154, 334, 541, 650
FaiI YATR 8 cut(s) 41, 152, 270, 332, 495, 539, 648, 923
FaqI GGGAC 2 cut(s) 883, 949
FatI CATG 4 cut(s) 150, 330, 537, 646
FauI CCCGC 1 cut(s) 1496
FbaI TGATCA 1 cut(s) 964
FblI GTMKAC 1 cut(s) 1516
FspBI CTAG 2 cut(s) 230, 318
GlaI GCGC 5 cut(s) 114, 226, 463, 633, 1496
GsuI CTGGAG 1 cut(s) 110
HaeII RGCGCY 2 cut(s) 228, 1498
HaeIII GGCC 4 cut(s) 131, 149, 264, 402
HgaI GACGC 1 cut(s) 332
HhaI GCGC 5 cut(s) 115, 227, 464, 634, 1497
Hin1I GRCGYC 3 cut(s) 324, 363, 1519
Hin1II CATG 4 cut(s) 154, 334, 541, 650
Hin6I GCGC 5 cut(s) 113, 225, 462, 632, 1495
HinP1I GCGC 5 cut(s) 113, 225, 462, 632, 1495
HincII GTYRAC 4 cut(s) 895, 1141, 1517, 1526
HindII GTYRAC 4 cut(s) 895, 1141, 1517, 1526
HinfI GANTC 2 cut(s) 518, 541
HphI GGTGA 5 cut(s) 118, 839, 1082, 1292, 1466
Hpy166II GTNNAC 7 cut(s) 339, 381, 895, 1141, 1517, 1526, 1541
Hpy188III TCNNGA 3 cut(s) 331, 538, 1335
Hpy8I GTNNAC 7 cut(s) 339, 381, 895, 1141, 1517, 1526, 1541
Hpy99I CGWCG 4 cut(s) 29, 365, 1521, 1524
HpyAV CCTTC 3 cut(s) 556, 1238, 1383
HpyCH4IV ACGT 4 cut(s) 173, 363, 1519, 1528
HpyCH4V TGCA 5 cut(s) 32, 381, 447, 823, 1201
HpyF3I CTNAG 3 cut(s) 213, 1365, 1481
HpySE526I ACGT 4 cut(s) 173, 363, 1519, 1528
Hsp92I GRCGYC 3 cut(s) 324, 363, 1519
Hsp92II CATG 4 cut(s) 154, 334, 541, 650
HspAI GCGC 5 cut(s) 113, 225, 462, 632, 1495
KpnI GGTACC 1 cut(s) 253
Ksp22I TGATCA 1 cut(s) 964
Kzo9I GATC 4 cut(s) 453, 496, 898, 964
LmnI GCTCC 2 cut(s) 244, 595
Lsp1109I GCAGC 5 cut(s) 16, 32, 112, 459, 1138
LweI GCATC 2 cut(s) 156, 1518
MaeI CTAG 2 cut(s) 230, 318
MaeII ACGT 4 cut(s) 173, 363, 1519, 1528
MaeIII GTNAC 4 cut(s) 106, 827, 1454, 1460
MalI GATC 4 cut(s) 455, 498, 900, 966
MbiI CCGCTC 1 cut(s) 247
MboI GATC 4 cut(s) 453, 496, 898, 964
MboII GAAGA 3 cut(s) 229, 1386, 1392
MhlI GDGCHC 2 cut(s) 84, 383
MluCI AATT 2 cut(s) 490, 508
MroXI GAANNNNTTC 1 cut(s) 545
MseI TTAA 1 cut(s) 1503
MspA1I CMGCKG 1 cut(s) 1103
MvaI CCWGG 3 cut(s) 128, 504, 1419
NdeII GATC 4 cut(s) 453, 496, 898, 964
NlaIII CATG 4 cut(s) 154, 334, 541, 650
NmuCI GTSAC 2 cut(s) 106, 827
NspI RCATGY 1 cut(s) 650
NspV TTCGAA 1 cut(s) 521
PagI TCATGA 2 cut(s) 330, 537
PaqCI CACCTGC 1 cut(s) 94
PcsI WCGNNNNNNNCGW 4 cut(s) 360, 1513, 1525, 1534
PdmI GAANNNNTTC 1 cut(s) 545
PfeI GAWTC 2 cut(s) 518, 541
PflFI GACNNNGTC 2 cut(s) 326, 1521
PinAI ACCGGT 1 cut(s) 673
Psp6I CCWGG 3 cut(s) 126, 502, 1417
PspGI CCWGG 3 cut(s) 126, 502, 1417
PspPI GGNCC 4 cut(s) 130, 147, 263, 339
PsyI GACNNNGTC 2 cut(s) 326, 1521
PvuII CAGCTG 1 cut(s) 1103
RsaI GTAC 2 cut(s) 251, 642
RsaNI GTAC 2 cut(s) 250, 641
SalI GTCGAC 1 cut(s) 1515
SaqAI TTAA 1 cut(s) 1503
Sau3AI GATC 4 cut(s) 453, 496, 898, 964
Sau96I GGNCC 4 cut(s) 130, 147, 263, 339
SduI GDGCHC 2 cut(s) 84, 383
SfaNI GCATC 2 cut(s) 156, 1518
SfuI TTCGAA 1 cut(s) 521
SinI GGWCC 1 cut(s) 339
SmaI CCCGGG 1 cut(s) 12
Sse9I AATT 2 cut(s) 490, 508
SspMI CTAG 2 cut(s) 230, 318
StyI CCWWGG 2 cut(s) 229, 466
TaiI ACGT 4 cut(s) 176, 366, 1522, 1531
TaqI TCGA 6 cut(s) 16, 360, 521, 581, 970, 1516
TaqII GACCGA 2 cut(s) 356, 1502
TasI AATT 2 cut(s) 490, 508
TfiI GAWTC 2 cut(s) 518, 541
Tru1I TTAA 1 cut(s) 1503
Tru9I TTAA 1 cut(s) 1503
TseFI GTSAC 2 cut(s) 106, 827
TseI GCWGC 5 cut(s) 20, 29, 100, 447, 1126
Tsp45I GTSAC 2 cut(s) 106, 827
TspDTI ATGAA 1 cut(s) 554
TspMI CCCGGG 1 cut(s) 10
Tth111I GACNNNGTC 2 cut(s) 326, 1521
VneI GTGCAC 1 cut(s) 379
VpaK11BI GGWCC 1 cut(s) 339
XagI CCTNNNNNAGG 1 cut(s) 1368
XceI RCATGY 1 cut(s) 650
XmaI CCCGGG 1 cut(s) 10
XmaJI CCTAGG 1 cut(s) 229
XmiI GTMKAC 1 cut(s) 1516
XmnI GAANNNNTTC 1 cut(s) 545
XspI CTAG 2 cut(s) 230, 318
ZraI GACGTC 2 cut(s) 364, 1520
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.