RchiOBHm_Chr2g0166421

meiotic DNA double-strand break processing

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0021366
Physical Location & Seq
Reverse (-)
81085854 .. 81086303
450 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 450 bp
ATGTTAGTTTCTGGTACCCCGATAGAGGAATTATTTGTGCGAAGCAAAGAGTACGACGTTCAGCAAATCTTGTGTGAAGATGTTGAGTACGTTGAGTTTGTGCTCACGGATGTGAAGAAACCCAAATTTATTTTAGTTGTTGAGAATGACATAGTTTTTCAGAGATTGGCTGAATCAAAACTTCAGGATCATTTCCAGTGCATCATCATGATCGGCTGCGGACAACCAAGTATTGCGGTTCGAATATTCTTGAAGAAGATGGCCAAGGCTTTGGATATTCTTGTGCTAGTCCTTACGGATAGCAATCCTCATGGACTTGAAATTTTTTTCACATATTTATACGGATCCAGAAGCATGATCTACAATTCTAGACATCTAAGAACAAGAGGCATAAAGTGGTTGGATGTGTCACCTCAAGATTTGATTGATTTGAAAAGTGATGAGATTTAG
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

149

Amino Acids

17.22

Weight (kDa)

5.36

Isoelectric Point (pI)

46.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TOP6A-Spo11_Toprim PF21180 43 - 146 1.9e-30 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
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

Orthologous Genes (Group: OG0021366)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr2g0166421
rosa_multiflora Rmu_sc0003016.1_g000008
rosa_rugosa Rorug02G0522800
rosa_samantha Rh2BG601000 Rh2DG611200

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 14
AccB1I GGYRCC 1 cut(s) 14
AciI CCGC 2 cut(s) 219, 236
AclWI GGATC 3 cut(s) 195, 339, 352
AcoI YGGCCR 1 cut(s) 261
AcsI RAATTY 2 cut(s) 125, 321
AcuI CTGAAG 1 cut(s) 167
AfaI GTAC 3 cut(s) 16, 53, 89
AfiI CCNNNNNNNGG 1 cut(s) 25
AgsI TTSAA 3 cut(s) 253, 320, 433
AleI CACNNNNGTG 1 cut(s) 110
Alw21I GWGCWC 1 cut(s) 105
AlwI GGATC 3 cut(s) 195, 339, 352
AoxI GGCC 1 cut(s) 261
ApeKI GCWGC 1 cut(s) 216
ApoI RAATTY 2 cut(s) 125, 321
Asp718I GGTACC 1 cut(s) 14
AsuHPI GGTGA 1 cut(s) 402
AsuII TTCGAA 1 cut(s) 241
BalI TGGCCA 1 cut(s) 263
BamHI GGATCC 1 cut(s) 344
BanI GGYRCC 1 cut(s) 14
Bbv12I GWGCWC 1 cut(s) 105
BbvI GCAGC 1 cut(s) 203
BccI CCATC 1 cut(s) 253
BfaI CTAG 2 cut(s) 287, 369
BisI GCNGC 1 cut(s) 217
BlsI GCNGC 1 cut(s) 218
BmiI GGNNCC 2 cut(s) 16, 346
BmsI GCATC 1 cut(s) 210
Bpu14I TTCGAA 1 cut(s) 241
BpuEI CTTGAG 1 cut(s) 399
BsaBI GATNNNNATC 1 cut(s) 303
BsaJI CCNNGG 1 cut(s) 264
Bsc4I CCNNNNNNNGG 1 cut(s) 25
Bse1I ACTGG 1 cut(s) 196
Bse8I GATNNNNATC 1 cut(s) 303
BseDI CCNNGG 1 cut(s) 264
BseGI GGATG 2 cut(s) 115, 409
BseJI GATNNNNATC 1 cut(s) 303
BseLI CCNNNNNNNGG 1 cut(s) 25
BseNI ACTGG 1 cut(s) 196
BseXI GCAGC 1 cut(s) 203
BshFI GGCC 1 cut(s) 263
BshNI GGYRCC 1 cut(s) 14
BsiHKAI GWGCWC 1 cut(s) 105
BslI CCNNNNNNNGG 1 cut(s) 25
BsnI GGCC 1 cut(s) 263
Bsp119I TTCGAA 1 cut(s) 241
Bsp1286I GDGCHC 1 cut(s) 105
Bsp143I GATC 4 cut(s) 187, 210, 344, 357
BspACI CCGC 2 cut(s) 219, 236
BspANI GGCC 1 cut(s) 263
BspHI TCATGA 1 cut(s) 207
BspLI GGNNCC 2 cut(s) 16, 346
BspPI GGATC 3 cut(s) 195, 339, 352
BspT104I TTCGAA 1 cut(s) 241
BspT107I GGYRCC 1 cut(s) 14
BsrI ACTGG 1 cut(s) 196
BssECI CCNNGG 1 cut(s) 264
BssMI GATC 4 cut(s) 187, 210, 344, 357
BssT1I CCWWGG 1 cut(s) 264
BstBI TTCGAA 1 cut(s) 241
BstDEI CTNAG 1 cut(s) 377
BstF5I GGATG 2 cut(s) 115, 409
BstKTI GATC 4 cut(s) 190, 213, 347, 360
BstMBI GATC 4 cut(s) 187, 210, 344, 357
BstV1I GCAGC 1 cut(s) 203
BstX2I RGATCY 1 cut(s) 344
BstXI CCANNNNNNTGG 1 cut(s) 271
BstYI RGATCY 1 cut(s) 344
BsuRI GGCC 1 cut(s) 263
BtsCI GGATG 2 cut(s) 115, 409
BtsIMutI CAGTG 1 cut(s) 203
CciI TCATGA 1 cut(s) 207
Csp6I GTAC 3 cut(s) 15, 52, 88
CviAII CATG 3 cut(s) 208, 311, 355
CviJI RGCY 4 cut(s) 170, 216, 263, 269
CviKI_1 RGCY 4 cut(s) 170, 216, 263, 269
CviQI GTAC 3 cut(s) 15, 52, 88
DdeI CTNAG 1 cut(s) 377
DpnI GATC 4 cut(s) 189, 212, 346, 359
DpnII GATC 4 cut(s) 187, 210, 344, 357
EaeI YGGCCR 1 cut(s) 261
Eco130I CCWWGG 1 cut(s) 264
Eco57I CTGAAG 1 cut(s) 167
EcoT14I CCWWGG 1 cut(s) 264
ErhI CCWWGG 1 cut(s) 264
FaeI CATG 3 cut(s) 211, 314, 358
FaiI YATR 7 cut(s) 152, 209, 312, 334, 340, 356, 392
FatI CATG 3 cut(s) 207, 310, 354
Fnu4HI GCNGC 1 cut(s) 217
FokI GGATG 2 cut(s) 122, 416
Fsp4HI GCNGC 1 cut(s) 217
FspBI CTAG 2 cut(s) 287, 369
GluI GCNGC 1 cut(s) 217
HaeIII GGCC 1 cut(s) 263
Hin1II CATG 3 cut(s) 211, 314, 358
HinfI GANTC 1 cut(s) 173
HphI GGTGA 1 cut(s) 402
Hpy188I TCNGA 1 cut(s) 162
Hpy188III TCNNGA 6 cut(s) 185, 208, 250, 348, 369, 416
Hpy99I CGWCG 1 cut(s) 59
HpyCH4IV ACGT 2 cut(s) 57, 90
HpyCH4V TGCA 1 cut(s) 201
HpyF3I CTNAG 1 cut(s) 377
HpySE526I ACGT 2 cut(s) 57, 90
Hsp92II CATG 3 cut(s) 211, 314, 358
KpnI GGTACC 1 cut(s) 18
Kzo9I GATC 4 cut(s) 187, 210, 344, 357
LpnPI CCDG 3 cut(s) 170, 209, 361
Lsp1109I GCAGC 1 cut(s) 203
LweI GCATC 1 cut(s) 210
MaeI CTAG 2 cut(s) 287, 369
MaeII ACGT 2 cut(s) 57, 90
MaeIII GTNAC 1 cut(s) 408
MalI GATC 4 cut(s) 189, 212, 346, 359
MboI GATC 4 cut(s) 187, 210, 344, 357
MboII GAAGA 4 cut(s) 89, 127, 265, 268
MflI RGATCY 1 cut(s) 344
MhlI GDGCHC 1 cut(s) 105
MlsI TGGCCA 1 cut(s) 263
MluCI AATT 4 cut(s) 29, 125, 321, 364
MluNI TGGCCA 1 cut(s) 263
MmeI TCCRAC 1 cut(s) 381
MnlI CCTC 4 cut(s) 19, 318, 380, 423
Mox20I TGGCCA 1 cut(s) 263
MscI TGGCCA 1 cut(s) 263
MslI CAYNNNNRTG 2 cut(s) 110, 206
Msp20I TGGCCA 1 cut(s) 263
NdeII GATC 4 cut(s) 187, 210, 344, 357
NlaIII CATG 3 cut(s) 211, 314, 358
NlaIV GGNNCC 2 cut(s) 16, 346
NmuCI GTSAC 1 cut(s) 408
NspV TTCGAA 1 cut(s) 241
OliI CACNNNNGTG 1 cut(s) 110
PagI TCATGA 1 cut(s) 207
PfeI GAWTC 1 cut(s) 173
PkrI GCNGC 1 cut(s) 218
PspN4I GGNNCC 2 cut(s) 16, 346
PsuI RGATCY 1 cut(s) 344
RsaI GTAC 3 cut(s) 16, 53, 89
RsaNI GTAC 3 cut(s) 15, 52, 88
RseI CAYNNNNRTG 2 cut(s) 110, 206
SatI GCNGC 1 cut(s) 217
Sau3AI GATC 4 cut(s) 187, 210, 344, 357
SduI GDGCHC 1 cut(s) 105
SetI ASST 3 cut(s) 60, 93, 415
SfaNI GCATC 1 cut(s) 210
SfuI TTCGAA 1 cut(s) 241
SmiMI CAYNNNNRTG 2 cut(s) 110, 206
SmlI CTYRAG 1 cut(s) 414
SmoI CTYRAG 1 cut(s) 414
Sse9I AATT 4 cut(s) 29, 125, 321, 364
SsiI CCGC 2 cut(s) 219, 236
SspI AATATT 1 cut(s) 246
SspMI CTAG 2 cut(s) 287, 369
StyI CCWWGG 1 cut(s) 264
TaiI ACGT 2 cut(s) 60, 93
TaqI TCGA 1 cut(s) 241
TasI AATT 4 cut(s) 29, 125, 321, 364
TfiI GAWTC 1 cut(s) 173
TscAI CASTG 1 cut(s) 203
TseFI GTSAC 1 cut(s) 408
TseI GCWGC 1 cut(s) 216
Tsp45I GTSAC 1 cut(s) 408
TspGWI ACGGA 3 cut(s) 122, 311, 357
TspRI CASTG 1 cut(s) 203
XapI RAATTY 2 cut(s) 125, 321
XbaI TCTAGA 1 cut(s) 368
XspI CTAG 2 cut(s) 287, 369
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.