Rh5AG318300
MYB Family

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0000468
Physical Location & Seq
Forward (+)
46839458 .. 46841762
2305 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG318300.1

Sequence Viewer

Length: 666 bp
ATGATGTATATCATTGTAGAAAGACATTATCGGAAGTATATATTGAAATCACCATCTTTTTATGATGCTTTGTCAAGAATTGGAAATGTTCAACGAATGGTGTATGCAAGCGATATAAGATGCATAAACAGTCTCCGCATGGATAGGCATACATTTAGCTTATTGTGCTCTATGTTACGCACATCTGATAAATTAAGAGACACAAGAAATGTATCTGTAGATGAAATGGTGGCTATGTTCTTGCATATTCTTGCGCACCATGAAAAGAACAGAATCATACAAGATAGATTTTTGCGTTCTGGGAAAACAATTAGGAGATATTTTAACGCGGTATTAAGAGCAGTCCTATGTCTACAAGGACAATTGTTAAAAACACCAGAACCTGTTTCAGAAAACTCATCTGATGAGAAGTGGAAATGGTTTAAGAATTGTCTCGGGGCGCTAGATGGGACATATATTAGAGTACATGTGCCCGAAGTGGACAAGCCTAGGTACCGAAGTAGGAAGAATGAAATTGCTACTAATGTCTTGGGAGTATGCTCCCAAGATATGCAATTCATTTATGTGTTACTTGGTTGGGAGGGTTCGGCTGCAGATTCACGAGTACTACGTGATGCCATTCATAGGAGACATGGTTTCCGAGTTCCCCATGGTGAGATGAACTAA
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

221

Amino Acids

25.93

Weight (kDa)

9.78

Isoelectric Point (pI)

44.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 29 - 116 1.1e-28 Domain of unknown function (DUF8040)
DDE_Tnp_4 PF13359 148 - 205 8.6e-07 DDE superfamily endonuclease
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)
Acc16I TGCGCA 1 cut(s) 255
Acc65I GGTACC 1 cut(s) 492
AccB1I GGYRCC 1 cut(s) 492
AccI GTMKAC 1 cut(s) 352
AccII CGCG 1 cut(s) 329
AciI CCGC 2 cut(s) 136, 329
AfaI GTAC 3 cut(s) 465, 494, 606
AfiI CCNNNNNNNGG 1 cut(s) 624
AflIII ACRYGT 1 cut(s) 466
AgsI TTSAA 2 cut(s) 46, 92
AluBI AGCT 1 cut(s) 159
AluI AGCT 1 cut(s) 159
Alw21I GWGCWC 1 cut(s) 170
Alw26I GTCTC 4 cut(s) 137, 192, 437, 622
AlwNI CAGNNNCTG 1 cut(s) 383
Ama87I CYCGRG 1 cut(s) 434
ApeKI GCWGC 1 cut(s) 590
Asp718I GGTACC 1 cut(s) 492
AspA2I CCTAGG 1 cut(s) 488
AspLEI GCGC 2 cut(s) 256, 442
AsuHPI GGTGA 2 cut(s) 42, 665
AvaI CYCGRG 1 cut(s) 434
AvrII CCTAGG 1 cut(s) 488
BaeGI GKGCMC 1 cut(s) 474
BaeI ACNNNNGTAYC 2 cut(s) 484, 517
BanI GGYRCC 1 cut(s) 492
BauI CACGAG 1 cut(s) 600
Bbv12I GWGCWC 1 cut(s) 170
BbvI GCAGC 1 cut(s) 577
BccI CCATC 2 cut(s) 61, 440
BcoDI GTCTC 4 cut(s) 137, 192, 437, 622
BfaI CTAG 2 cut(s) 443, 489
BfmI CTRYAG 2 cut(s) 216, 591
BfoI RGCGCY 1 cut(s) 443
BisI GCNGC 1 cut(s) 591
BlnI CCTAGG 1 cut(s) 488
BlsI GCNGC 1 cut(s) 592
BmcAI AGTACT 1 cut(s) 606
BmeT110I CYCGRG 1 cut(s) 434
BmiI GGNNCC 1 cut(s) 494
BmsI GCATC 3 cut(s) 55, 110, 604
BsaAI YACGTR 1 cut(s) 611
BsaBI GATNNNNATC 1 cut(s) 8
BsaJI CCNNGG 2 cut(s) 488, 649
BsaXI ACNNNNNCTCC 2 cut(s) 619, 649
Bsc4I CCNNNNNNNGG 1 cut(s) 624
Bse8I GATNNNNATC 1 cut(s) 8
BseDI CCNNGG 2 cut(s) 488, 649
BseJI GATNNNNATC 1 cut(s) 8
BseLI CCNNNNNNNGG 1 cut(s) 624
BseSI GKGCMC 1 cut(s) 474
BseXI GCAGC 1 cut(s) 577
Bsh1236I CGCG 1 cut(s) 329
BshNI GGYRCC 1 cut(s) 492
BsiHKAI GWGCWC 1 cut(s) 170
BsiHKCI CYCGRG 1 cut(s) 434
BslFI GGGAC 1 cut(s) 463
BslI CCNNNNNNNGG 1 cut(s) 624
BsmAI GTCTC 4 cut(s) 137, 192, 437, 622
BsmFI GGGAC 1 cut(s) 463
BsoBI CYCGRG 1 cut(s) 434
Bsp1286I GDGCHC 2 cut(s) 170, 474
Bsp19I CCATGG 1 cut(s) 649
BspACI CCGC 2 cut(s) 136, 329
BspFNI CGCG 1 cut(s) 329
BspLI GGNNCC 1 cut(s) 494
BspMAI CTGCAG 1 cut(s) 595
BspT107I GGYRCC 1 cut(s) 492
BssECI CCNNGG 2 cut(s) 488, 649
BssSI CACGAG 1 cut(s) 600
BssT1I CCWWGG 2 cut(s) 488, 649
Bst2BI CACGAG 1 cut(s) 600
Bst4CI ACNGT 1 cut(s) 131
BstBAI YACGTR 1 cut(s) 611
BstC8I GCNNGC 1 cut(s) 109
BstDSI CCRYGG 1 cut(s) 649
BstFNI CGCG 1 cut(s) 329
BstH2I RGCGCY 1 cut(s) 443
BstHHI GCGC 2 cut(s) 256, 442
BstMAI GTCTC 4 cut(s) 137, 192, 437, 622
BstMWI GCNNNNNNNGC 1 cut(s) 165
BstNSI RCATGY 1 cut(s) 470
BstSFI CTRYAG 2 cut(s) 216, 591
BstSLI GKGCMC 1 cut(s) 474
BstUI CGCG 1 cut(s) 329
BstV1I GCAGC 1 cut(s) 577
BtgI CCRYGG 1 cut(s) 649
Cac8I GCNNGC 1 cut(s) 109
CaiI CAGNNNCTG 1 cut(s) 383
CfoI GCGC 2 cut(s) 256, 442
Csp6I GTAC 3 cut(s) 464, 493, 605
CviAII CATG 5 cut(s) 139, 260, 467, 632, 650
CviJI RGCY 4 cut(s) 159, 233, 487, 590
CviKI_1 RGCY 4 cut(s) 159, 233, 487, 590
CviQI GTAC 3 cut(s) 464, 493, 605
Eco130I CCWWGG 2 cut(s) 488, 649
Eco88I CYCGRG 1 cut(s) 434
EcoT14I CCWWGG 2 cut(s) 488, 649
EcoT22I ATGCAT 1 cut(s) 125
ErhI CCWWGG 2 cut(s) 488, 649
FaeI CATG 5 cut(s) 142, 263, 470, 635, 653
FaqI GGGAC 1 cut(s) 463
FatI CATG 5 cut(s) 138, 259, 466, 631, 649
FblI GTMKAC 1 cut(s) 352
Fnu4HI GCNGC 1 cut(s) 591
Fsp4HI GCNGC 1 cut(s) 591
FspBI CTAG 2 cut(s) 443, 489
FspI TGCGCA 1 cut(s) 255
GlaI GCGC 2 cut(s) 255, 441
GluI GCNGC 1 cut(s) 591
HaeII RGCGCY 1 cut(s) 443
HhaI GCGC 2 cut(s) 256, 442
Hin1II CATG 5 cut(s) 142, 263, 470, 635, 653
Hin6I GCGC 2 cut(s) 254, 440
HinP1I GCGC 2 cut(s) 254, 440
HinfI GANTC 2 cut(s) 273, 596
HphI GGTGA 2 cut(s) 42, 665
Hpy166II GTNNAC 2 cut(s) 353, 481
Hpy188I TCNGA 5 cut(s) 33, 187, 391, 403, 641
Hpy188III TCNNGA 2 cut(s) 75, 600
Hpy8I GTNNAC 2 cut(s) 353, 481
HpyCH4III ACNGT 1 cut(s) 131
HpyCH4IV ACGT 1 cut(s) 610
HpyCH4V TGCA 5 cut(s) 107, 123, 244, 553, 593
HpyF10VI GCNNNNNNNGC 1 cut(s) 165
HpySE526I ACGT 1 cut(s) 610
Hsp92II CATG 5 cut(s) 142, 263, 470, 635, 653
HspAI GCGC 2 cut(s) 254, 440
KpnI GGTACC 1 cut(s) 496
LmnI GCTCC 1 cut(s) 545
LpnPI CCDG 3 cut(s) 285, 390, 396
Lsp1109I GCAGC 1 cut(s) 577
LweI GCATC 3 cut(s) 55, 110, 604
MaeI CTAG 2 cut(s) 443, 489
MaeII ACGT 1 cut(s) 610
MaeIII GTNAC 2 cut(s) 174, 567
MboII GAAGA 1 cut(s) 517
MfeI CAATTG 1 cut(s) 362
MhlI GDGCHC 2 cut(s) 170, 474
MluCI AATT 7 cut(s) 78, 191, 309, 362, 427, 513, 554
MnlI CCTC 1 cut(s) 574
Mph1103I ATGCAT 1 cut(s) 125
MseI TTAA 5 cut(s) 194, 324, 335, 368, 423
MslI CAYNNNNRTG 1 cut(s) 563
MunI CAATTG 1 cut(s) 362
MvnI CGCG 1 cut(s) 329
MwoI GCNNNNNNNGC 1 cut(s) 165
NcoI CCATGG 1 cut(s) 649
NlaIII CATG 5 cut(s) 142, 263, 470, 635, 653
NlaIV GGNNCC 1 cut(s) 494
NsbI TGCGCA 1 cut(s) 255
NsiI ATGCAT 1 cut(s) 125
NspI RCATGY 1 cut(s) 470
PciI ACATGT 1 cut(s) 466
PcsI WCGNNNNNNNCGW 1 cut(s) 607
PfeI GAWTC 2 cut(s) 273, 596
PkrI GCNGC 1 cut(s) 592
Ppu21I YACGTR 1 cut(s) 611
PscI ACATGT 1 cut(s) 466
PspN4I GGNNCC 1 cut(s) 494
PstI CTGCAG 1 cut(s) 595
PstNI CAGNNNCTG 1 cut(s) 383
RsaI GTAC 3 cut(s) 465, 494, 606
RsaNI GTAC 3 cut(s) 464, 493, 605
RseI CAYNNNNRTG 1 cut(s) 563
SaqAI TTAA 5 cut(s) 194, 324, 335, 368, 423
SatI GCNGC 1 cut(s) 591
ScaI AGTACT 1 cut(s) 606
SduI GDGCHC 2 cut(s) 170, 474
SetI ASST 4 cut(s) 161, 385, 494, 613
SfaNI GCATC 3 cut(s) 55, 110, 604
SfcI CTRYAG 2 cut(s) 216, 591
SmiMI CAYNNNNRTG 1 cut(s) 563
Sse9I AATT 7 cut(s) 78, 191, 309, 362, 427, 513, 554
SsiI CCGC 2 cut(s) 136, 329
SspMI CTAG 2 cut(s) 443, 489
StyI CCWWGG 2 cut(s) 488, 649
TaaI ACNGT 1 cut(s) 131
TaiI ACGT 1 cut(s) 613
TasI AATT 7 cut(s) 78, 191, 309, 362, 427, 513, 554
TatI WGTACW 2 cut(s) 463, 604
TfiI GAWTC 2 cut(s) 273, 596
Tru1I TTAA 5 cut(s) 194, 324, 335, 368, 423
Tru9I TTAA 5 cut(s) 194, 324, 335, 368, 423
TseI GCWGC 1 cut(s) 590
TspDTI ATGAA 5 cut(s) 237, 276, 525, 547, 611
XceI RCATGY 1 cut(s) 470
XmaJI CCTAGG 1 cut(s) 488
XmiI GTMKAC 1 cut(s) 352
XspI CTAG 2 cut(s) 443, 489
ZrmI AGTACT 1 cut(s) 606
Zsp2I ATGCAT 1 cut(s) 125
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.