Rroxscaffold_4G00280000

meiotic DNA double-strand break processing

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0009658
Physical Location & Seq
Reverse (-)
2687974 .. 2692426
4453 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00280000.1

Sequence Viewer

Length: 1416 bp
ATGGACTGCAATCCACATGGATTGAAGATTTCTGGTATTTACCGTTACGGGTCAAAGTCCATGTCTTATGACCGTGAGAATTTAACCACACCTGATATTAAGTTGCTGGGCATACGATACTCGATATTGTTAAGTGAGGGGTTCGACTTATTCGATACAACATATGTCAATACTGAAGCCCAAGACCCTATTATGAGGGCAATATCACATCTAACAATGGATTCATCAGGTGAGGGGTTCGACTTATTCGATACAACATATGTCAATACTGAAGCCCAAGACCCTATTATGAGGGCAATATCACATCTAACAATGTTTCTTAGTCATCGGAAAGATGATGATACTTGGATTATATGTTGCGAGCGATTTGACAATCTACTTAGCGAGTGTTCTGATCATTTGGTATTGCCCGATAATGATACTTGGAAGGATTCGATCAGAAACTCTATGAAGACTGTGAATTATATACATAAGCGTAAACTGTTGCATGAGGGTTTGAGCAAGACATGTAATTACGCTTTGATTGAAGACCTGAAGACTAGAACCATAAAGATCAAAATTATTTTTGATAAGGCATGGAGTGTTGATAACTCGTTTAAGGGGATTGATGGATACCTAAACAATTCTGGTTTTTATGGATTGAAGAGATTGAAAGATTGGACCGACTGTAGAGATGTTCTCAAGGATTTTGTTTTGAAGTCTTTGGGAGAATCAGATGAGACAATTCATTCTTGGCGTTTTTTTATTATACCGAAGGCGATTTCAGGGACTGATGGATACCTAAACAATTCTGATTTTTGTGGATTGAAGAGATTGAAAGATTGGATCGACTATAGAGGCGTTCTCAAGGATTTTGTTTTGAAGTTTTTGGGAGAATCAGATGAGACAAATTCATTGTTGGCGTTTTTTGATTATACTGAAGGCGATTTTAGATGTGTTCTCAAGGATTTTGTGTTGAAGTCTTTGGGAGAATTAGATGAGACAAATTCATTCTTGGCATTTTTTGATTATACTGAAGGCGATTTCAGGACTTATGATATATTTGTTAGACAATTTTTAAGTCTTCCGTATTTTTCGAAATGGGCCAAACGAATGAAGTATCTCATTATGTTTGATCATACATTGTTAGTAGCAAAAACGCTACGTAGATATCGTGCTTTTGAAATTGCAGCAAAAGGAGGTGAGTTTGAAATGTATCGGGATTGGATTGAAAAATTAACTCCTTGTTTGAGTGCCCACTGTTGGCGAGATATGAGGGAGAAGGAGATCTCATACAATTCGAACAACATATTTGATCTCATTAGGTTTCTCGGGAATCTTGGTGTCCATGACAAATCAAGAGATTATGCACACTCTTACAATGAAGTGAATAGATCCTTCCCCAATTTGTGCAACCGGCTGCGTTGTTATTTATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000166 GO:0000228 GO:0000280 GO:0000706 GO:0000707 GO:0000724 GO:0000725 GO:0000729 GO:0000730 GO:0000781 GO:0001541 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0003824 GO:0003916 GO:0003918 GO:0004518 GO:0004519 GO:0004520 GO:0004536 GO:0005488 GO:0005524 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007059 GO:0007127 GO:0007129 GO:0007130 GO:0007131 GO:0007140 GO:0007141 GO:0007146 GO:0007275 GO:0007276 GO:0007281 GO:0007283 GO:0007286 GO:0007292 GO:0007548 GO:0008094 GO:0008104 GO:0008144 GO:0008150 GO:0008152 GO:0008406 GO:0008585 GO:0008608 GO:0009987 GO:0016043 GO:0016462 GO:0016787 GO:0016788 GO:0016817 GO:0016818 GO:0016853 GO:0016887 GO:0016888 GO:0016889 GO:0016893 GO:0016894 GO:0017076 GO:0017111 GO:0019953 GO:0022402 GO:0022412 GO:0022414 GO:0022607 GO:0030154 GO:0030554 GO:0030717 GO:0031619 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032504 GO:0032553 GO:0032555 GO:0032559 GO:0033036 GO:0033365 GO:0033554 GO:0034397 GO:0034502 GO:0034613 GO:0034622 GO:0034641 GO:0035639 GO:0035825 GO:0035861 GO:0036094 GO:0042138 GO:0042139 GO:0042140 GO:0042623 GO:0043060 GO:0043167 GO:0043168 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044464 GO:0044703 GO:0045003 GO:0045027 GO:0045132 GO:0045137 GO:0045141 GO:0045143 GO:0046483 GO:0046545 GO:0046660 GO:0048232 GO:0048285 GO:0048468 GO:0048477 GO:0048513 GO:0048515 GO:0048608 GO:0048609 GO:0048731 GO:0048856 GO:0048869 GO:0050000 GO:0050896 GO:0051179 GO:0051234 GO:0051276 GO:0051303 GO:0051310 GO:0051311 GO:0051316 GO:0051321 GO:0051455 GO:0051640 GO:0051641 GO:0051649 GO:0051656 GO:0051704 GO:0051716 GO:0061458 GO:0061505 GO:0061982 GO:0061988 GO:0065003 GO:0065004 GO:0070013 GO:0070192 GO:0070193 GO:0070727 GO:0071704 GO:0071824 GO:0071840 GO:0090220 GO:0090304 GO:0090305 GO:0090734 GO:0090735 GO:0097159 GO:0097367 GO:0098687 GO:0098813 GO:0140013 GO:0140097 GO:1901265 GO:1901360 GO:1901363 GO:1903046 GO:1990918
KEGG Pathways
Metabolic & Signaling
ko04113 map04113
Pfam Domains
Protein Families
SPO11_like TP6A_N

Protein Analysis

471

Amino Acids

55.21

Weight (kDa)

5.99

Isoelectric Point (pI)

20.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TOP6A-Spo11_Toprim PF21180 1 - 41 6.8e-09 Topoisomerase 6 subunit A/Spo11, Toprim domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 2 cut(s) 833, 1368
AcsI RAATTY 3 cut(s) 79, 889, 985
AcuI CTGAAG 5 cut(s) 195, 291, 554, 939, 1035
AfiI CCNNNNNNNGG 1 cut(s) 1242
AflIII ACRYGT 1 cut(s) 506
Alw26I GTCTC 3 cut(s) 713, 878, 974
AlwI GGATC 2 cut(s) 833, 1368
AlwNI CAGNNNCTG 1 cut(s) 770
Ama87I CYCGRG 1 cut(s) 1310
AoxI GGCC 1 cut(s) 1083
ApeKI GCWGC 2 cut(s) 1169, 1399
ApoI RAATTY 3 cut(s) 79, 889, 985
ArsI GACNNNNNNTTYG 2 cut(s) 47, 79
AspS9I GGNCC 2 cut(s) 660, 1083
AsuHPI GGTGA 2 cut(s) 242, 1193
AsuII TTCGAA 2 cut(s) 1076, 1280
AvaI CYCGRG 1 cut(s) 1310
AvaII GGWCC 1 cut(s) 660
BaeGI GKGCMC 1 cut(s) 1237
BbsI GAAGAC 4 cut(s) 458, 534, 542, 1055
BbvI GCAGC 2 cut(s) 1181, 1386
BccI CCATC 2 cut(s) 602, 767
BciVI GTATCC 2 cut(s) 605, 770
BclI TGATCA 2 cut(s) 394, 1114
BcoDI GTCTC 3 cut(s) 713, 878, 974
BfaI CTAG 1 cut(s) 540
BfmI CTRYAG 2 cut(s) 667, 832
BfuI GTATCC 2 cut(s) 605, 770
BglII AGATCT 1 cut(s) 1266
BisI GCNGC 2 cut(s) 1170, 1400
BlsI GCNGC 2 cut(s) 1171, 1401
Bme18I GGWCC 1 cut(s) 660
BmeT110I CYCGRG 1 cut(s) 1310
BmgT120I GGNCC 2 cut(s) 660, 1083
BpiI GAAGAC 4 cut(s) 458, 534, 542, 1055
BplI GAGNNNNNCTC 4 cut(s) 663, 695, 828, 860
Bpu14I TTCGAA 2 cut(s) 1076, 1280
BpuEI CTTGAG 3 cut(s) 665, 830, 926
BsaAI YACGTR 1 cut(s) 1145
Bsc4I CCNNNNNNNGG 1 cut(s) 1242
Bse118I RCCGGY 1 cut(s) 1395
BseLI CCNNNNNNNGG 1 cut(s) 1242
BseSI GKGCMC 1 cut(s) 1237
BseXI GCAGC 2 cut(s) 1181, 1386
BseYI CCCAGC 1 cut(s) 106
BshFI GGCC 1 cut(s) 1085
BsiHKCI CYCGRG 1 cut(s) 1310
BsiSI CCGG 1 cut(s) 1396
BslFI GGGAC 1 cut(s) 781
BslI CCNNNNNNNGG 1 cut(s) 1242
BsmAI GTCTC 3 cut(s) 713, 878, 974
BsmFI GGGAC 1 cut(s) 781
BsnI GGCC 1 cut(s) 1085
BsoBI CYCGRG 1 cut(s) 1310
Bsp119I TTCGAA 2 cut(s) 1076, 1280
Bsp1286I GDGCHC 1 cut(s) 1237
Bsp143I GATC 8 cut(s) 394, 435, 552, 825, 1114, 1266, 1294, 1373
BspANI GGCC 1 cut(s) 1085
BspPI GGATC 2 cut(s) 833, 1368
BspT104I TTCGAA 2 cut(s) 1076, 1280
BsrFI RCCGGY 1 cut(s) 1395
BssAI RCCGGY 1 cut(s) 1395
BssMI GATC 8 cut(s) 394, 435, 552, 825, 1114, 1266, 1294, 1373
Bst4CI ACNGT 6 cut(s) 44, 74, 457, 483, 668, 1241
Bst6I CTCTTC 2 cut(s) 638, 803
BstBAI YACGTR 1 cut(s) 1145
BstBI TTCGAA 2 cut(s) 1076, 1280
BstC8I GCNNGC 1 cut(s) 362
BstDEI CTNAG 2 cut(s) 320, 380
BstKTI GATC 8 cut(s) 397, 438, 555, 828, 1117, 1269, 1297, 1376
BstMAI GTCTC 3 cut(s) 713, 878, 974
BstMBI GATC 8 cut(s) 394, 435, 552, 825, 1114, 1266, 1294, 1373
BstNSI RCATGY 1 cut(s) 510
BstSFI CTRYAG 2 cut(s) 667, 832
BstSLI GKGCMC 1 cut(s) 1237
BstSNI TACGTA 1 cut(s) 1145
BstV1I GCAGC 2 cut(s) 1181, 1386
BstV2I GAAGAC 4 cut(s) 458, 534, 542, 1055
BstX2I RGATCY 2 cut(s) 1266, 1373
BstYI RGATCY 2 cut(s) 1266, 1373
BsuI GTATCC 2 cut(s) 605, 770
BsuRI GGCC 1 cut(s) 1085
BtsIMutI CAGTG 1 cut(s) 1237
Cac8I GCNNGC 1 cut(s) 362
CaiI CAGNNNCTG 1 cut(s) 770
Cfr10I RCCGGY 1 cut(s) 1395
Cfr13I GGNCC 2 cut(s) 660, 1083
CspCI CAANNNNNGTGG 1 cut(s) 38
CviAII CATG 6 cut(s) 17, 61, 488, 507, 576, 1328
CviJI RGCY 4 cut(s) 179, 275, 1085, 1399
CviKI_1 RGCY 4 cut(s) 179, 275, 1085, 1399
DdeI CTNAG 2 cut(s) 320, 380
DpnI GATC 8 cut(s) 396, 437, 554, 827, 1116, 1268, 1296, 1375
DpnII GATC 8 cut(s) 394, 435, 552, 825, 1114, 1266, 1294, 1373
Eam1104I CTCTTC 2 cut(s) 638, 803
EarI CTCTTC 2 cut(s) 638, 803
Eco105I TACGTA 1 cut(s) 1145
Eco32I GATATC 1 cut(s) 1151
Eco47I GGWCC 1 cut(s) 660
Eco57I CTGAAG 5 cut(s) 195, 291, 554, 939, 1035
Eco88I CYCGRG 1 cut(s) 1310
EcoRV GATATC 1 cut(s) 1151
FaeI CATG 6 cut(s) 20, 64, 491, 510, 579, 1331
FaqI GGGAC 1 cut(s) 781
FatI CATG 6 cut(s) 16, 60, 487, 506, 575, 1327
FauNDI CATATG 2 cut(s) 163, 259
FbaI TGATCA 2 cut(s) 394, 1114
Fnu4HI GCNGC 2 cut(s) 1170, 1400
Fsp4HI GCNGC 2 cut(s) 1170, 1400
FspBI CTAG 1 cut(s) 540
GluI GCNGC 2 cut(s) 1170, 1400
GsaI CCCAGC 1 cut(s) 110
HaeIII GGCC 1 cut(s) 1085
HapII CCGG 1 cut(s) 1396
Hin1II CATG 6 cut(s) 20, 64, 491, 510, 579, 1331
HinfI GANTC 5 cut(s) 221, 431, 710, 875, 1315
HpaII CCGG 1 cut(s) 1396
HphI GGTGA 2 cut(s) 242, 1193
Hpy166II GTNNAC 1 cut(s) 479
Hpy188I TCNGA 6 cut(s) 330, 394, 440, 715, 793, 880
Hpy188III TCNNGA 4 cut(s) 1027, 1199, 1312, 1338
Hpy8I GTNNAC 1 cut(s) 479
HpyAV CCTTC 6 cut(s) 421, 748, 914, 1010, 1255, 1387
HpyCH4III ACNGT 6 cut(s) 44, 74, 457, 483, 668, 1241
HpyCH4IV ACGT 1 cut(s) 1144
HpyCH4V TGCA 5 cut(s) 9, 487, 1169, 1349, 1392
HpyF3I CTNAG 2 cut(s) 320, 380
HpySE526I ACGT 1 cut(s) 1144
Hsp92II CATG 6 cut(s) 20, 64, 491, 510, 579, 1331
Ksp22I TGATCA 2 cut(s) 394, 1114
Kzo9I GATC 8 cut(s) 394, 435, 552, 825, 1114, 1266, 1294, 1373
LpnPI CCDG 9 cut(s) 18, 92, 105, 213, 545, 612, 750, 1012, 1409
Lsp1109I GCAGC 2 cut(s) 1181, 1386
MaeI CTAG 1 cut(s) 540
MaeII ACGT 1 cut(s) 1144
MaeIII GTNAC 1 cut(s) 44
MalI GATC 8 cut(s) 396, 437, 554, 827, 1116, 1268, 1296, 1375
MboI GATC 8 cut(s) 394, 435, 552, 825, 1114, 1266, 1294, 1373
MboII GAAGA 7 cut(s) 37, 463, 539, 547, 655, 820, 1055
MflI RGATCY 2 cut(s) 1266, 1373
MhlI GDGCHC 1 cut(s) 1237
MnlI CCTC 8 cut(s) 130, 189, 226, 285, 484, 830, 1172, 1248
MseI TTAA 6 cut(s) 83, 99, 131, 597, 1058, 1217
MspI CCGG 1 cut(s) 1396
NdeI CATATG 2 cut(s) 163, 259
NdeII GATC 8 cut(s) 394, 435, 552, 825, 1114, 1266, 1294, 1373
NlaIII CATG 6 cut(s) 20, 64, 491, 510, 579, 1331
NspI RCATGY 1 cut(s) 510
NspV TTCGAA 2 cut(s) 1076, 1280
PciI ACATGT 1 cut(s) 506
PcsI WCGNNNNNNNCGW 3 cut(s) 150, 246, 1150
PfeI GAWTC 5 cut(s) 221, 431, 710, 875, 1315
PkrI GCNGC 2 cut(s) 1171, 1401
Ppu21I YACGTR 1 cut(s) 1145
PscI ACATGT 1 cut(s) 506
PspFI CCCAGC 1 cut(s) 106
PspPI GGNCC 2 cut(s) 660, 1083
PstNI CAGNNNCTG 1 cut(s) 770
PsuI RGATCY 2 cut(s) 1266, 1373
SaqAI TTAA 6 cut(s) 83, 99, 131, 597, 1058, 1217
SatI GCNGC 2 cut(s) 1170, 1400
Sau3AI GATC 8 cut(s) 394, 435, 552, 825, 1114, 1266, 1294, 1373
Sau96I GGNCC 2 cut(s) 660, 1083
SduI GDGCHC 1 cut(s) 1237
SetI ASST 8 cut(s) 94, 232, 534, 618, 783, 1147, 1183, 1307
SfcI CTRYAG 2 cut(s) 667, 832
SfuI TTCGAA 2 cut(s) 1076, 1280
SinI GGWCC 1 cut(s) 660
SmlI CTYRAG 3 cut(s) 680, 845, 941
SmoI CTYRAG 3 cut(s) 680, 845, 941
SnaBI TACGTA 1 cut(s) 1145
SspMI CTAG 1 cut(s) 540
TaaI ACNGT 6 cut(s) 44, 74, 457, 483, 668, 1241
TaiI ACGT 1 cut(s) 1147
TaqI TCGA 9 cut(s) 122, 144, 153, 240, 249, 434, 828, 1076, 1280
TaqII GACCGA 1 cut(s) 677
TfiI GAWTC 5 cut(s) 221, 431, 710, 875, 1315
Tru1I TTAA 6 cut(s) 83, 99, 131, 597, 1058, 1217
Tru9I TTAA 6 cut(s) 83, 99, 131, 597, 1058, 1217
TscAI CASTG 1 cut(s) 1244
TseI GCWGC 2 cut(s) 1169, 1399
TspDTI ATGAA 7 cut(s) 213, 464, 716, 882, 978, 1109, 1377
TspGWI ACGGA 1 cut(s) 1056
TspRI CASTG 1 cut(s) 1244
VpaK11BI GGWCC 1 cut(s) 660
XapI RAATTY 3 cut(s) 79, 889, 985
XceI RCATGY 1 cut(s) 510
XspI CTAG 1 cut(s) 540
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.