RchiOBHm_Chr1g0331991
MYB Family

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0000468
Physical Location & Seq
Forward (+)
23082803 .. 23087720
4918 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ56094

Sequence Viewer

Length: 684 bp
ATGCAAGTACCTAAGGTTGATAAGCCAAGATATCGAACGCGGAAGGGGGAAATTGCAACAAATGTCCTAGGTATATGTGATCGAAACATGATGTTCATCTTTGTGTTTCCGGGATGGGAGGGTTCAGCCTCAGATTCTAGAGTTCTTCGTGATGCATTGAGTAGGCCTAATGGATTAAAAGTTCCTAGAGGTTTCTATTATCTAGTGGATGTTGGATATGCAAATAGTGAGGGCTTTCTTGCGCCATATCGAGGAACTAGTTACCATATTGAGGAATGGGAGAGTCGTAGACCAAGAAATTGTGAGCAGTACTTTAATATGAAGCATGCCTCTGCAAGAAATGTGATTGAGAGATGTTTTGGAGTTCTTAAGGGTCGTTGGGCTATCTTAAGAAGTCCTTCCTTCTATCCGATAGATACTCAGACACAAATAATTCTTGCTTGTTGTCTTTTGCATAACTTTATTAGAAGAGAAATGTCTCAAGATCCAATGGAGGAGCAAGTAAATCTAAACTACAATGGTATAACGAGGGTGGAAAGTTCTAGTCGATCTAATATTAGTAGAAGAGATGAATCTCCATCTGATCAATGGCATACATGGAGGGATGATTTGGCTGAAAAAATGTTCAATGAATGGAAGAGAAGACAAAGGCAAAGAGAAAGACAGAACATGATGATCCAATAG
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
DDE_Tnp_4 Myb_DNA-bind_3

Protein Analysis

227

Amino Acids

26.93

Weight (kDa)

9.5

Isoelectric Point (pI)

66.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DDE_Tnp_4 PF13359 3 - 153 7.1e-26 DDE superfamily endonuclease
DDE_Tnp_1 PF01609 9 - 150 9.4e-07 Transposase DDE domain
Plant_tran PF04827 97 - 156 4.5e-07 Plant transposon protein
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: OG0000468)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g04030 FvH4_2g09411 FvH4_3g15551 FvH4_3g36421 FvH4_4g11701 FvH4_5g36381 FvH4_6g09143 FvH4_6g09144 FvH4_6g21972
malus_domestica MD00G1096500.v1.1 MD00G1122500.v1.1 MD02G1090600.v1.1 MD02G1173300.v1.1 MD05G1202800.v1.1 MD14G1123600.v1.1
prunus_persica Prupe.1G083600_v2.0.a1 Prupe.1G245300_v2.0.a1 Prupe.5G002100_v2.0.a1 Prupe.6G061200_v2.0.a1
pyrus_communis pycom01g07060 pycom02g13920 pycom04g11780 pycom04g13480 pycom04g21940 pycom06g07950 pycom07g03740 pycom07g03980 pycom09g02010 pycom09g02020 pycom09g11510 pycom09g14260 pycom10g02500 pycom10g15690 pycom12g08730 pycom12g08740 pycom14g19840 pycom15g16780 pycom15g24940 pycom15g25660 pycom16g21630 pycom16g26320
rosa_chinensis RchiOBHm_Chr1g0330371 RchiOBHm_Chr1g0331991 RchiOBHm_Chr6g0300321
rosa_laevigata RLG00000013795
rosa_multiflora Rmu_sc0000060.1_g000010 Rmu_sc0000288.1_g000044 Rmu_sc0002219.1_g000002 Rmu_sc0003995.1_g000003
rosa_roxburghii Rroxscaffold_1G00059020 Rroxscaffold_2G00108450 Rroxscaffold_2G00112460 Rroxscaffold_5G00375700 Rroxscaffold_5G00381640 Rroxscaffold_7G00158590
rosa_rugosa Rorug01G0237300 Rorug01G0237400 Rorug01G0237500 Rorug02G0051900 Rorug03G0260600 Rorug03G0285800 Rorug04G0076800 Rorug04G0162600 Rorug07G0264500 Rorug07G0264500
rosa_samantha Rh2DG003500 Rh3CG244800 Rh4CG334200 Rh5AG318300 Rh5BG549000 Rh7AG126400 Rh7CG118500 Rh7CG154500 Rh7DG025400
rosa_wichuraiana Rw1G026390 Rw2G005400 Rw2G034490 Rw3G019530 Rw3G028000 Rw4G010490 Rw5G010830 Rw5G023340 Rw5G026580 Rw5G041150 Rw6G003010 Rw6G003290 Rw6G010630 Rw6G021220 Rw6G035650 Rw7G014310

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 289
AccII CGCG 1 cut(s) 40
AciI CCGC 1 cut(s) 40
AclWI GGATC 2 cut(s) 479, 670
AfaI GTAC 2 cut(s) 9, 311
AfiI CCNNNNNNNGG 2 cut(s) 251, 271
AflII CTTAAG 2 cut(s) 368, 388
AgsI TTSAA 1 cut(s) 628
AhlI ACTAGT 1 cut(s) 257
AloI GAACNNNNNNTCC 2 cut(s) 165, 197
Alw26I GTCTC 1 cut(s) 483
AlwI GGATC 2 cut(s) 479, 670
AoxI GGCC 1 cut(s) 164
Asp700I GAANNNNTTC 1 cut(s) 397
AspA2I CCTAGG 1 cut(s) 67
AspLEI GCGC 1 cut(s) 244
AsuC2I CCSGG 1 cut(s) 111
AvrII CCTAGG 1 cut(s) 67
AxyI CCTNAGG 1 cut(s) 12
BbsI GAAGAC 1 cut(s) 649
BccI CCATC 2 cut(s) 108, 586
BclI TGATCA 1 cut(s) 583
BcnI CCSGG 1 cut(s) 111
BcoDI GTCTC 1 cut(s) 483
BcuI ACTAGT 1 cut(s) 257
BfaI CTAG 6 cut(s) 68, 138, 186, 203, 258, 543
BfrI CTTAAG 2 cut(s) 368, 388
BlnI CCTAGG 1 cut(s) 67
BmcAI AGTACT 1 cut(s) 311
Bme1390I CCNGG 1 cut(s) 111
BmrFI CCNGG 1 cut(s) 111
BmsI GCATC 1 cut(s) 142
BpiI GAAGAC 1 cut(s) 649
BpuEI CTTGAG 1 cut(s) 465
BpuMI CCSGG 1 cut(s) 111
BsaBI GATNNNNATC 1 cut(s) 95
BsaJI CCNNGG 1 cut(s) 67
Bsc4I CCNNNNNNNGG 2 cut(s) 251, 271
Bse21I CCTNAGG 1 cut(s) 12
Bse8I GATNNNNATC 1 cut(s) 95
BseDI CCNNGG 1 cut(s) 67
BseGI GGATG 3 cut(s) 119, 214, 610
BseJI GATNNNNATC 1 cut(s) 95
BseLI CCNNNNNNNGG 2 cut(s) 251, 271
BseMII CTCAG 2 cut(s) 144, 434
BseRI GAGGAG 1 cut(s) 509
Bsh1236I CGCG 1 cut(s) 40
BshFI GGCC 1 cut(s) 166
BsiSI CCGG 1 cut(s) 110
BslI CCNNNNNNNGG 2 cut(s) 251, 271
BsmAI GTCTC 1 cut(s) 483
BsnI GGCC 1 cut(s) 166
Bsp143I GATC 5 cut(s) 79, 484, 548, 583, 675
BspACI CCGC 1 cut(s) 40
BspANI GGCC 1 cut(s) 166
BspCNI CTCAG 2 cut(s) 143, 433
BspFNI CGCG 1 cut(s) 40
BspPI GGATC 2 cut(s) 479, 670
BspTI CTTAAG 2 cut(s) 368, 388
BssECI CCNNGG 1 cut(s) 67
BssMI GATC 5 cut(s) 79, 484, 548, 583, 675
BssT1I CCWWGG 1 cut(s) 67
Bst6I CTCTTC 3 cut(s) 463, 559, 632
BstAFI CTTAAG 2 cut(s) 368, 388
BstC8I GCNNGC 1 cut(s) 327
BstDEI CTNAG 3 cut(s) 12, 130, 420
BstF5I GGATG 3 cut(s) 119, 214, 610
BstFNI CGCG 1 cut(s) 40
BstHHI GCGC 1 cut(s) 244
BstKTI GATC 5 cut(s) 82, 487, 551, 586, 678
BstMAI GTCTC 1 cut(s) 483
BstMBI GATC 5 cut(s) 79, 484, 548, 583, 675
BstNSI RCATGY 1 cut(s) 329
BstSCI CCNGG 1 cut(s) 109
BstUI CGCG 1 cut(s) 40
BstV2I GAAGAC 1 cut(s) 649
BstX2I RGATCY 1 cut(s) 484
BstYI RGATCY 1 cut(s) 484
Bsu36I CCTNAGG 1 cut(s) 12
BsuRI GGCC 1 cut(s) 166
BtsCI GGATG 3 cut(s) 119, 214, 610
Cac8I GCNNGC 1 cut(s) 327
CfoI GCGC 1 cut(s) 244
Csp6I GTAC 2 cut(s) 8, 310
CviAII CATG 4 cut(s) 88, 326, 597, 670
CviJI RGCY 6 cut(s) 25, 128, 166, 234, 383, 614
CviKI_1 RGCY 6 cut(s) 25, 128, 166, 234, 383, 614
CviQI GTAC 2 cut(s) 8, 310
DdeI CTNAG 3 cut(s) 12, 130, 420
DpnI GATC 5 cut(s) 81, 486, 550, 585, 677
DpnII GATC 5 cut(s) 79, 484, 548, 583, 675
Eam1104I CTCTTC 3 cut(s) 463, 559, 632
EarI CTCTTC 3 cut(s) 463, 559, 632
Eco130I CCWWGG 1 cut(s) 67
Eco147I AGGCCT 1 cut(s) 166
Eco32I GATATC 1 cut(s) 32
Eco81I CCTNAGG 1 cut(s) 12
EcoRV GATATC 1 cut(s) 32
EcoT14I CCWWGG 1 cut(s) 67
EcoT22I ATGCAT 1 cut(s) 157
ErhI CCWWGG 1 cut(s) 67
FaeI CATG 4 cut(s) 91, 329, 600, 673
FalI AAGNNNNNCTT 2 cut(s) 382, 414
FatI CATG 4 cut(s) 87, 325, 596, 669
FbaI TGATCA 1 cut(s) 583
FblI GTMKAC 1 cut(s) 289
FokI GGATG 3 cut(s) 126, 221, 617
FspBI CTAG 6 cut(s) 68, 138, 186, 203, 258, 543
GlaI GCGC 1 cut(s) 243
HaeIII GGCC 1 cut(s) 166
HapII CCGG 1 cut(s) 110
HhaI GCGC 1 cut(s) 244
Hin1II CATG 4 cut(s) 91, 329, 600, 673
Hin6I GCGC 1 cut(s) 242
HinP1I GCGC 1 cut(s) 242
HinfI GANTC 3 cut(s) 134, 283, 572
HpaII CCGG 1 cut(s) 110
Hpy166II GTNNAC 1 cut(s) 290
Hpy188I TCNGA 4 cut(s) 133, 411, 423, 583
Hpy188III TCNNGA 3 cut(s) 138, 149, 482
Hpy8I GTNNAC 1 cut(s) 290
HpyAV CCTTC 3 cut(s) 37, 408, 412
HpyCH4V TGCA 6 cut(s) 4, 56, 155, 221, 335, 454
HpyF3I CTNAG 3 cut(s) 12, 130, 420
Hsp92II CATG 4 cut(s) 91, 329, 600, 673
HspAI GCGC 1 cut(s) 242
Ksp22I TGATCA 1 cut(s) 583
Kzo9I GATC 5 cut(s) 79, 484, 548, 583, 675
LmnI GCTCC 1 cut(s) 496
LpnPI CCDG 1 cut(s) 123
LweI GCATC 1 cut(s) 142
MaeI CTAG 6 cut(s) 68, 138, 186, 203, 258, 543
MaeIII GTNAC 1 cut(s) 260
MalI GATC 5 cut(s) 81, 486, 550, 585, 677
MboI GATC 5 cut(s) 79, 484, 548, 583, 675
MboII GAAGA 5 cut(s) 137, 480, 576, 649, 654
MflI RGATCY 1 cut(s) 484
MluCI AATT 3 cut(s) 51, 298, 432
MlyI GAGTC 1 cut(s) 292
MmeI TCCRAC 1 cut(s) 193
Mph1103I ATGCAT 1 cut(s) 157
MroXI GAANNNNTTC 1 cut(s) 397
MseI TTAA 4 cut(s) 176, 315, 369, 389
MslI CAYNNNNRTG 1 cut(s) 101
MspCI CTTAAG 2 cut(s) 368, 388
MspI CCGG 1 cut(s) 110
MspR9I CCNGG 1 cut(s) 111
MvnI CGCG 1 cut(s) 40
NciI CCSGG 1 cut(s) 111
NdeII GATC 5 cut(s) 79, 484, 548, 583, 675
NlaIII CATG 4 cut(s) 91, 329, 600, 673
NsiI ATGCAT 1 cut(s) 157
NspI RCATGY 1 cut(s) 329
PaeI GCATGC 1 cut(s) 329
PceI AGGCCT 1 cut(s) 166
PdmI GAANNNNTTC 1 cut(s) 397
PfeI GAWTC 2 cut(s) 134, 572
PfoI TCCNGGA 1 cut(s) 109
PleI GAGTC 1 cut(s) 291
PpsI GAGTC 1 cut(s) 291
PsuI RGATCY 1 cut(s) 484
RsaI GTAC 2 cut(s) 9, 311
RsaNI GTAC 2 cut(s) 8, 310
RseI CAYNNNNRTG 1 cut(s) 101
SaqAI TTAA 4 cut(s) 176, 315, 369, 389
Sau3AI GATC 5 cut(s) 79, 484, 548, 583, 675
ScaI AGTACT 1 cut(s) 311
SchI GAGTC 1 cut(s) 292
ScrFI CCNGG 1 cut(s) 111
SetI ASST 4 cut(s) 13, 18, 73, 193
SfaNI GCATC 1 cut(s) 142
SmiMI CAYNNNNRTG 1 cut(s) 101
SmlI CTYRAG 3 cut(s) 368, 388, 480
SmoI CTYRAG 3 cut(s) 368, 388, 480
SpeI ACTAGT 1 cut(s) 257
SphI GCATGC 1 cut(s) 329
Sse9I AATT 3 cut(s) 51, 298, 432
SseBI AGGCCT 1 cut(s) 166
SsiI CCGC 1 cut(s) 40
SspI AATATT 1 cut(s) 556
SspMI CTAG 6 cut(s) 68, 138, 186, 203, 258, 543
StuI AGGCCT 1 cut(s) 166
StyD4I CCNGG 1 cut(s) 109
StyI CCWWGG 1 cut(s) 67
TaqI TCGA 4 cut(s) 34, 82, 250, 547
TasI AATT 3 cut(s) 51, 298, 432
TatI WGTACW 1 cut(s) 309
TfiI GAWTC 2 cut(s) 134, 572
Tru1I TTAA 4 cut(s) 176, 315, 369, 389
Tru9I TTAA 4 cut(s) 176, 315, 369, 389
TspDTI ATGAA 4 cut(s) 85, 335, 585, 645
Vha464I CTTAAG 2 cut(s) 368, 388
XbaI TCTAGA 1 cut(s) 137
XceI RCATGY 1 cut(s) 329
XcmI CCANNNNNNNNNTGG 1 cut(s) 585
XmaJI CCTAGG 1 cut(s) 67
XmiI GTMKAC 1 cut(s) 289
XmnI GAANNNNTTC 1 cut(s) 397
XspI CTAG 6 cut(s) 68, 138, 186, 203, 258, 543
ZrmI AGTACT 1 cut(s) 311
Zsp2I ATGCAT 1 cut(s) 157
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.