RchiOBHm_Chr4g0436461

HD domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0009302
Physical Location & Seq
Reverse (-)
59742359 .. 59744958
2600 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ40479

Sequence Viewer

Length: 801 bp
ATGGCGGTTAATTCACCGACTAGTCGCTGCGCCGCTCAGCTCAGCCGCTCCCTCGCTCCTCGCTCACCTCTCCCTTTCTCCAACCGGACCTTCACGCGACCCGGAATCCGCCCCGACCCGGCGACCCCCAGGCTCGTCTCCGTCCGTAGCCAGACGCCGTCTCCGGACGCTTTCCGATCCAAGCGGCCGGTCGGTCTCGGCGAGCCCGAAGCTCCGATCGGGTCCTCGGGTTCTTCGTCCACCTCCTCGGCCATTGATTTTCTCACGTTGTGCCACTCTCTCAAGACTACGAAAAGGAAAGGGTGGGTGAATCATGGAATAAAGGGCGAGTCGATTGCTGACCACATGTACCGCATGGCTTTGATGTCTTTGATTGCTGGTGATATTCCTGGTTTGAATAGAGAAAGGTGTATTAAGATTGCAATTGTGCATGACATTGCAGAAGCTATCGTTGGAGATATAACACCATCTGATGGTGTGCCTAAAAAGGAAAAGAGCAGAATGGAGGAAGCAGCTTTGAATGAAATGTGTGTGGTTCTTGGTGGAGGGATGAGAGCTGAAGAGATCAAAGAACTTTGGGCAGAGTATGAAAACAATTCTTCTATAGAGGCTAATCTTGTGAAGGATTTTGACAAAGTTGAAATGATTCTGCAAGCATTGGAGTATGAAATGGAACACGGAAAAGTGCTGGATGAGTTTTTCATTTCTACAGCAGGAAAATTTCAGACTGATCTAGGAAAGAGTTGGGCAGCTGAGATCATTTCTAGAAGAAATACACGGCTGGGAAAAAGCCACAACTGA
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
HD_3

Protein Analysis

266

Amino Acids

29.15

Weight (kDa)

8.32

Isoelectric Point (pI)

47.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YfbR-like PF12917 87 - 227 2.9e-06 5'-deoxynucleotidase YfbR-like
HD_3 PF13023 92 - 243 4.9e-45 HD domain
HD PF01966 113 - 215 1.1e-09 HD 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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 473
AccBSI CCGCTC 2 cut(s) 35, 48
AccII CGCG 1 cut(s) 97
AccIII TCCGGA 1 cut(s) 163
AciI CCGC 6 cut(s) 5, 33, 46, 109, 184, 352
AclWI GGATC 1 cut(s) 171
AcoI YGGCCR 2 cut(s) 185, 249
AcsI RAATTY 1 cut(s) 719
AcuI CTGAAG 1 cut(s) 579
AcyI GRCGYC 1 cut(s) 155
AdeI CACNNNGTG 1 cut(s) 270
AfaI GTAC 1 cut(s) 350
AfiI CCNNNNNNNGG 2 cut(s) 118, 473
AflIII ACRYGT 1 cut(s) 345
AgsI TTSAA 3 cut(s) 397, 520, 641
AhlI ACTAGT 1 cut(s) 20
AjnI CCWGG 2 cut(s) 128, 388
AjuI GAANNNNNNNTTGG 4 cut(s) 74, 106, 435, 467
AluBI AGCT 6 cut(s) 40, 212, 446, 515, 557, 752
AluI AGCT 6 cut(s) 40, 212, 446, 515, 557, 752
Alw26I GTCTC 3 cut(s) 142, 165, 200
AlwI GGATC 1 cut(s) 171
Ama87I CYCGRG 1 cut(s) 226
Aor13HI TCCGGA 1 cut(s) 163
AoxI GGCC 2 cut(s) 185, 249
ApeKI GCWGC 3 cut(s) 27, 512, 749
ApoI RAATTY 1 cut(s) 719
Asp700I GAANNNNTTC 1 cut(s) 645
AspLEI GCGC 1 cut(s) 32
AspS9I GGNCC 2 cut(s) 87, 222
AsuC2I CCSGG 2 cut(s) 102, 119
AsuHPI GGTGA 4 cut(s) 6, 57, 319, 392
AvaI CYCGRG 1 cut(s) 226
AvaII GGWCC 2 cut(s) 87, 222
BanII GRGCYC 1 cut(s) 207
BbvI GCAGC 3 cut(s) 14, 524, 761
BccI CCATC 2 cut(s) 467, 475
BceAI ACGGC 2 cut(s) 142, 794
BcgI CGANNNNNNTGC 2 cut(s) 317, 351
BciT130I CCWGG 2 cut(s) 130, 390
BcnI CCSGG 2 cut(s) 102, 119
BcoDI GTCTC 3 cut(s) 142, 165, 200
BcuI ACTAGT 1 cut(s) 20
BfaI CTAG 3 cut(s) 21, 734, 765
BfmI CTRYAG 2 cut(s) 603, 708
BisI GCNGC 6 cut(s) 28, 33, 46, 185, 513, 750
BlpI GCTNAGC 2 cut(s) 36, 41
BlsI GCNGC 6 cut(s) 29, 34, 47, 186, 514, 751
Bme1390I CCNGG 4 cut(s) 102, 119, 130, 390
Bme18I GGWCC 2 cut(s) 87, 222
BmeT110I CYCGRG 1 cut(s) 226
BmgT120I GGNCC 2 cut(s) 87, 222
BmiI GGNNCC 1 cut(s) 223
BmrFI CCNGG 4 cut(s) 102, 119, 130, 390
Bpu1102I GCTNAGC 2 cut(s) 36, 41
BpuEI CTTGAG 1 cut(s) 266
BpuMI CCSGG 2 cut(s) 102, 119
BsaHI GRCGYC 1 cut(s) 155
BsaI GGTCTC 1 cut(s) 200
BsaJI CCNNGG 3 cut(s) 128, 225, 246
BsaWI WCCGGW 2 cut(s) 84, 163
BsaXI ACNNNNNCTCC 2 cut(s) 145, 175
Bsc4I CCNNNNNNNGG 2 cut(s) 118, 473
Bse118I RCCGGY 1 cut(s) 187
Bse3DI GCAATG 1 cut(s) 435
BseAI TCCGGA 1 cut(s) 163
BseBI CCWGG 2 cut(s) 130, 390
BseDI CCNNGG 3 cut(s) 128, 225, 246
BseGI GGATG 2 cut(s) 555, 697
BseLI CCNNNNNNNGG 2 cut(s) 118, 473
BseMI GCAATG 1 cut(s) 435
BseMII CTCAG 3 cut(s) 50, 55, 744
BseRI GAGGAG 2 cut(s) 48, 235
BseX3I CGGCCG 1 cut(s) 185
BseXI GCAGC 3 cut(s) 14, 524, 761
BseYI CCCAGC 1 cut(s) 781
Bsh1236I CGCG 1 cut(s) 97
Bsh1285I CGRYCG 3 cut(s) 188, 192, 219
BshFI GGCC 2 cut(s) 187, 251
BsiEI CGRYCG 3 cut(s) 188, 192, 219
BsiHKCI CYCGRG 1 cut(s) 226
BsiSI CCGG 5 cut(s) 85, 102, 119, 164, 188
BslI CCNNNNNNNGG 2 cut(s) 118, 473
BsmAI GTCTC 3 cut(s) 142, 165, 200
BsmBI CGTCTC 2 cut(s) 142, 165
BsnI GGCC 2 cut(s) 187, 251
Bso31I GGTCTC 1 cut(s) 200
BsoBI CYCGRG 1 cut(s) 226
Bsp1286I GDGCHC 1 cut(s) 207
Bsp13I TCCGGA 1 cut(s) 163
Bsp143I GATC 5 cut(s) 176, 216, 564, 730, 756
Bsp1720I GCTNAGC 2 cut(s) 36, 41
BspACI CCGC 6 cut(s) 5, 33, 46, 109, 184, 352
BspANI GGCC 2 cut(s) 187, 251
BspCNI CTCAG 3 cut(s) 49, 54, 745
BspEI TCCGGA 1 cut(s) 163
BspFNI CGCG 1 cut(s) 97
BspLI GGNNCC 1 cut(s) 223
BspPI GGATC 1 cut(s) 171
BspTNI GGTCTC 1 cut(s) 200
BsrBI CCGCTC 2 cut(s) 35, 48
BsrDI GCAATG 1 cut(s) 435
BsrFI RCCGGY 1 cut(s) 187
BssAI RCCGGY 1 cut(s) 187
BssECI CCNNGG 3 cut(s) 128, 225, 246
BssMI GATC 5 cut(s) 176, 216, 564, 730, 756
BssNI GRCGYC 1 cut(s) 155
Bst2UI CCWGG 2 cut(s) 130, 390
Bst6I CTCTTC 1 cut(s) 555
BstACI GRCGYC 1 cut(s) 155
BstC8I GCNNGC 2 cut(s) 203, 654
BstDEI CTNAG 3 cut(s) 36, 41, 753
BstF5I GGATG 2 cut(s) 555, 697
BstFNI CGCG 1 cut(s) 97
BstHHI GCGC 1 cut(s) 32
BstKTI GATC 5 cut(s) 179, 219, 567, 733, 759
BstMAI GTCTC 3 cut(s) 142, 165, 200
BstMBI GATC 5 cut(s) 176, 216, 564, 730, 756
BstMCI CGRYCG 3 cut(s) 188, 192, 219
BstNI CCWGG 2 cut(s) 130, 390
BstNSI RCATGY 1 cut(s) 349
BstSCI CCNGG 4 cut(s) 100, 117, 128, 388
BstSFI CTRYAG 2 cut(s) 603, 708
BstUI CGCG 1 cut(s) 97
BstV1I GCAGC 3 cut(s) 14, 524, 761
BstZI CGGCCG 1 cut(s) 185
BsuRI GGCC 2 cut(s) 187, 251
BtsCI GGATG 2 cut(s) 555, 697
Cac8I GCNNGC 2 cut(s) 203, 654
CfoI GCGC 1 cut(s) 32
Cfr10I RCCGGY 1 cut(s) 187
Cfr13I GGNCC 2 cut(s) 87, 222
CseI GACGC 2 cut(s) 163, 176
Csp6I GTAC 1 cut(s) 349
CviAII CATG 4 cut(s) 314, 346, 355, 431
CviQI GTAC 1 cut(s) 349
DdeI CTNAG 3 cut(s) 36, 41, 753
DpnI GATC 5 cut(s) 178, 218, 566, 732, 758
DpnII GATC 5 cut(s) 176, 216, 564, 730, 756
DraIII CACNNNGTG 1 cut(s) 270
EaeI YGGCCR 2 cut(s) 185, 249
EagI CGGCCG 1 cut(s) 185
Eam1104I CTCTTC 1 cut(s) 555
EarI CTCTTC 1 cut(s) 555
EciI GGCGGA 1 cut(s) 98
EclXI CGGCCG 1 cut(s) 185
Eco24I GRGCYC 1 cut(s) 207
Eco31I GGTCTC 1 cut(s) 200
Eco47I GGWCC 2 cut(s) 87, 222
Eco52I CGGCCG 1 cut(s) 185
Eco57I CTGAAG 1 cut(s) 579
Eco88I CYCGRG 1 cut(s) 226
EcoO109I RGGNCCY 1 cut(s) 222
EcoRII CCWGG 2 cut(s) 128, 388
EcoT38I GRGCYC 1 cut(s) 207
Esp3I CGTCTC 2 cut(s) 142, 165
FaeI CATG 4 cut(s) 317, 349, 358, 434
FaiI YATR 8 cut(s) 315, 347, 356, 432, 461, 588, 605, 666
FatI CATG 4 cut(s) 313, 345, 354, 430
Fnu4HI GCNGC 6 cut(s) 28, 33, 46, 185, 513, 750
FokI GGATG 2 cut(s) 562, 704
FriOI GRGCYC 1 cut(s) 207
Fsp4HI GCNGC 6 cut(s) 28, 33, 46, 185, 513, 750
FspBI CTAG 3 cut(s) 21, 734, 765
GlaI GCGC 1 cut(s) 31
GluI GCNGC 6 cut(s) 28, 33, 46, 185, 513, 750
GsaI CCCAGC 1 cut(s) 785
HaeIII GGCC 2 cut(s) 187, 251
HapII CCGG 5 cut(s) 85, 102, 119, 164, 188
HgaI GACGC 2 cut(s) 163, 176
HhaI GCGC 1 cut(s) 32
Hin1I GRCGYC 1 cut(s) 155
Hin1II CATG 4 cut(s) 317, 349, 358, 434
Hin6I GCGC 1 cut(s) 30
HinP1I GCGC 1 cut(s) 30
HinfI GANTC 4 cut(s) 105, 310, 329, 646
HpaII CCGG 5 cut(s) 85, 102, 119, 164, 188
HphI GGTGA 4 cut(s) 6, 57, 319, 392
Hpy166II GTNNAC 1 cut(s) 240
Hpy188I TCNGA 4 cut(s) 176, 216, 472, 726
Hpy188III TCNNGA 3 cut(s) 164, 283, 765
Hpy8I GTNNAC 1 cut(s) 240
HpyAV CCTTC 2 cut(s) 100, 616
HpyCH4IV ACGT 1 cut(s) 266
HpyCH4V TGCA 4 cut(s) 422, 430, 440, 652
HpyF3I CTNAG 3 cut(s) 36, 41, 753
HpySE526I ACGT 1 cut(s) 266
Hsp92I GRCGYC 1 cut(s) 155
Hsp92II CATG 4 cut(s) 317, 349, 358, 434
HspAI GCGC 1 cut(s) 30
Kpn2I TCCGGA 1 cut(s) 163
Kzo9I GATC 5 cut(s) 176, 216, 564, 730, 756
LmnI GCTCC 3 cut(s) 53, 61, 217
Lsp1109I GCAGC 3 cut(s) 14, 524, 761
MaeI CTAG 3 cut(s) 21, 734, 765
MaeII ACGT 1 cut(s) 266
MalI GATC 5 cut(s) 178, 218, 566, 732, 758
MbiI CCGCTC 2 cut(s) 35, 48
MboI GATC 5 cut(s) 176, 216, 564, 730, 756
MboII GAAGA 4 cut(s) 225, 572, 591, 780
MfeI CAATTG 1 cut(s) 423
MhlI GDGCHC 1 cut(s) 207
MluCI AATT 4 cut(s) 10, 423, 595, 719
MlyI GAGTC 1 cut(s) 338
MmeI TCCRAC 2 cut(s) 105, 433
MnlI CCTC 9 cut(s) 62, 69, 78, 235, 253, 256, 499, 539, 601
MroI TCCGGA 1 cut(s) 163
MroXI GAANNNNTTC 1 cut(s) 645
MseI TTAA 2 cut(s) 9, 414
MspA1I CMGCKG 1 cut(s) 752
MspI CCGG 5 cut(s) 85, 102, 119, 164, 188
MspR9I CCNGG 4 cut(s) 102, 119, 130, 390
MunI CAATTG 1 cut(s) 423
MvaI CCWGG 2 cut(s) 130, 390
MvnI CGCG 1 cut(s) 97
NciI CCSGG 2 cut(s) 102, 119
NdeII GATC 5 cut(s) 176, 216, 564, 730, 756
NlaIII CATG 4 cut(s) 317, 349, 358, 434
NlaIV GGNNCC 1 cut(s) 223
NmeAIII GCCGAG 2 cut(s) 177, 227
NspI RCATGY 1 cut(s) 349
PciI ACATGT 1 cut(s) 345
PcsI WCGNNNNNNNCGW 3 cut(s) 198, 204, 233
PdmI GAANNNNTTC 1 cut(s) 645
PfeI GAWTC 3 cut(s) 105, 310, 646
PflFI GACNNNGTC 1 cut(s) 157
PflMI CCANNNNNTGG 1 cut(s) 473
PkrI GCNGC 6 cut(s) 29, 34, 47, 186, 514, 751
Ple19I CGATCG 1 cut(s) 219
PleI GAGTC 1 cut(s) 337
PpsI GAGTC 1 cut(s) 337
PpuMI RGGWCCY 1 cut(s) 222
PscI ACATGT 1 cut(s) 345
Psp5II RGGWCCY 1 cut(s) 222
Psp6I CCWGG 2 cut(s) 128, 388
PspFI CCCAGC 1 cut(s) 781
PspGI CCWGG 2 cut(s) 128, 388
PspN4I GGNNCC 1 cut(s) 223
PspPI GGNCC 2 cut(s) 87, 222
PspPPI RGGWCCY 1 cut(s) 222
PsyI GACNNNGTC 1 cut(s) 157
PvuI CGATCG 1 cut(s) 219
PvuII CAGCTG 1 cut(s) 752
RsaI GTAC 1 cut(s) 350
RsaNI GTAC 1 cut(s) 349
SaqAI TTAA 2 cut(s) 9, 414
SatI GCNGC 6 cut(s) 28, 33, 46, 185, 513, 750
Sau3AI GATC 5 cut(s) 176, 216, 564, 730, 756
Sau96I GGNCC 2 cut(s) 87, 222
SchI GAGTC 1 cut(s) 338
ScrFI CCNGG 4 cut(s) 102, 119, 130, 390
SduI GDGCHC 1 cut(s) 207
SfcI CTRYAG 2 cut(s) 603, 708
SinI GGWCC 2 cut(s) 87, 222
SmlI CTYRAG 1 cut(s) 281
SmoI CTYRAG 1 cut(s) 281
SpeI ACTAGT 1 cut(s) 20
Sse9I AATT 4 cut(s) 10, 423, 595, 719
SsiI CCGC 6 cut(s) 5, 33, 46, 109, 184, 352
SspMI CTAG 3 cut(s) 21, 734, 765
StyD4I CCNGG 4 cut(s) 100, 117, 128, 388
TaiI ACGT 1 cut(s) 269
TaqI TCGA 1 cut(s) 332
TaqII GACCGA 1 cut(s) 182
TasI AATT 4 cut(s) 10, 423, 595, 719
TauI GCSGC 3 cut(s) 35, 48, 187
TfiI GAWTC 3 cut(s) 105, 310, 646
Tru1I TTAA 2 cut(s) 9, 414
Tru9I TTAA 2 cut(s) 9, 414
TseI GCWGC 3 cut(s) 27, 512, 749
TspDTI ATGAA 4 cut(s) 537, 603, 681, 691
TspGWI ACGGA 3 cut(s) 130, 134, 693
Tth111I GACNNNGTC 1 cut(s) 157
Van91I CCANNNNNTGG 1 cut(s) 473
VpaK11BI GGWCC 2 cut(s) 87, 222
XapI RAATTY 1 cut(s) 719
XbaI TCTAGA 1 cut(s) 764
XceI RCATGY 1 cut(s) 349
XmnI GAANNNNTTC 1 cut(s) 645
XspI CTAG 3 cut(s) 21, 734, 765
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.