Rroxscaffold_5G00381640

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000468
Physical Location & Seq
Reverse (-)
61552583 .. 61555003
2421 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00381640.1

Sequence Viewer

Length: 1008 bp
ATGAATAATGGCGTGAGAAGCCTGATGGTTCAAAGTAACCATGAAATGAATAGGGATAAGTTACGTAAGAAAAAATTAATGCATATTGTTGTATTGGTTATTGGATTTCTGATGTTGGTCATGGGTGCTCAAAGGCGACGCAAAAGGTTTATGAGAAAACAACCTTCAAGAAGTGAAGTTGATGAAAAGACATATAGAAGGATGCTTTGGATGAGAGTCTTAGAACATGAGTCTTCTTGTTTTGAACAGTTACGCATGAAACCTGCTGCATTTGAGAAGTTTTGTGCACTCTTACGGGATAGAGGGGGATTGGTGGTTACAAGAAATGTTACAATTAGAGAAGTTGTGGCATCATTTTTGCACATGCTTGGACATAATCTCAAAAATAGTACTATCAAAGCTATCTATGCTCGTTCAGGAGAAACCATAAGTAGGCAATTTCATCATGTTTTGAGATCAGTAGTCAAGCTTGGGAAGTTATACTTGAAGCAACATGAGTTAGTTCTCAATGAGAGAGACTTTGAGAAGTGGAGATGGTTTCAGGGCGCACTTGGAGCACTTGATGGGACATTTATTGACCTAACGGTTCCTACCGAAGATAAACCAAGATATCGAAATAGGAAGGGTGACATTAGTACAAATGTCTTAGGTGTTTGTGATGCTAATATGAAGTTTATCTATGTCTTACCTGGTTGGGAAGGATCTGCAGCAGATTCTAGAGTTTTACGTGATGCTTTGACTAGGCAAAATGGCTTAAAAATCCAATCAAACAAATACTATCTTGTGGATGCTGGATACACAAATGGACCAGGGTTTCTAGCTCCTTATCATGGGACTAGGTATCATCTTAATTTGTGGAGAGGAAACACCCGAAGGGATCACAAGGAGCTATTTAATCTTCGGCACTCATCAGCAAGAAATACAATTGAAAGAGCATTTGGATTATTGAAGAAGCGACGGGCAATACTACGCACAGCTAGTTTTTTTTTATGTGAAAACACAAGTTAG
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

Protein Analysis

335

Amino Acids

39.07

Weight (kDa)

10.49

Isoelectric Point (pI)

46.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 75 - 156 3.8e-24 Domain of unknown function (DUF8040)
DDE_Tnp_1 PF01609 184 - 324 9e-09 Transposase DDE domain
DDE_Tnp_4 PF13359 187 - 324 8e-20 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
Acc36I ACCTGC 1 cut(s) 271
AclWI GGATC 2 cut(s) 709, 885
AfaI GTAC 2 cut(s) 391, 637
AfiI CCNNNNNNNGG 2 cut(s) 432, 830
AgsI TTSAA 6 cut(s) 32, 168, 245, 487, 929, 949
AjnI CCWGG 2 cut(s) 688, 808
AjuI GAANNNNNNNTTGG 4 cut(s) 190, 222, 921, 953
AluBI AGCT 5 cut(s) 401, 469, 821, 889, 977
AluI AGCT 5 cut(s) 401, 469, 821, 889, 977
Alw21I GWGCWC 3 cut(s) 130, 289, 559
Alw26I GTCTC 1 cut(s) 510
Alw44I GTGCAC 1 cut(s) 285
AlwI GGATC 2 cut(s) 709, 885
ApaLI GTGCAC 1 cut(s) 285
ApeKI GCWGC 2 cut(s) 266, 707
AseI ATTAAT 1 cut(s) 77
AspLEI GCGC 1 cut(s) 548
AspS9I GGNCC 1 cut(s) 806
AsuHPI GGTGA 1 cut(s) 638
AvaII GGWCC 1 cut(s) 806
BaeGI GKGCMC 1 cut(s) 289
BbsI GAAGAC 1 cut(s) 225
Bbv12I GWGCWC 3 cut(s) 130, 289, 559
BbvI GCAGC 2 cut(s) 253, 719
BccI CCATC 3 cut(s) 19, 528, 557
BciT130I CCWGG 2 cut(s) 690, 810
BciVI GTATCC 1 cut(s) 788
BcoDI GTCTC 1 cut(s) 510
BfaI CTAG 5 cut(s) 717, 741, 818, 837, 978
BfmI CTRYAG 1 cut(s) 705
BfuAI ACCTGC 1 cut(s) 271
BfuI GTATCC 1 cut(s) 788
BisI GCNGC 2 cut(s) 267, 708
BlsI GCNGC 2 cut(s) 268, 709
BmcAI AGTACT 1 cut(s) 391
Bme1390I CCNGG 2 cut(s) 690, 810
Bme18I GGWCC 1 cut(s) 806
BmgT120I GGNCC 1 cut(s) 806
BmiI GGNNCC 1 cut(s) 588
BmrFI CCNGG 2 cut(s) 690, 810
BmsI GCATC 5 cut(s) 192, 359, 649, 721, 778
BpiI GAAGAC 1 cut(s) 225
BsaAI YACGTR 2 cut(s) 65, 728
BsaJI CCNNGG 1 cut(s) 809
Bsc4I CCNNNNNNNGG 2 cut(s) 432, 830
BseBI CCWGG 2 cut(s) 690, 810
BseDI CCNNGG 1 cut(s) 809
BseGI GGATG 3 cut(s) 207, 216, 793
BseLI CCNNNNNNNGG 2 cut(s) 432, 830
BseSI GKGCMC 1 cut(s) 289
BseXI GCAGC 2 cut(s) 253, 719
BsiHKAI GWGCWC 3 cut(s) 130, 289, 559
BslFI GGGAC 2 cut(s) 580, 847
BslI CCNNNNNNNGG 2 cut(s) 432, 830
BsmAI GTCTC 1 cut(s) 510
BsmFI GGGAC 2 cut(s) 580, 847
Bsp1286I GDGCHC 3 cut(s) 130, 289, 559
Bsp143I GATC 3 cut(s) 455, 701, 877
BspLI GGNNCC 1 cut(s) 588
BspMAI CTGCAG 1 cut(s) 709
BspMI ACCTGC 1 cut(s) 271
BspPI GGATC 2 cut(s) 709, 885
BssECI CCNNGG 1 cut(s) 809
BssMI GATC 3 cut(s) 455, 701, 877
Bst2UI CCWGG 2 cut(s) 690, 810
Bst4CI ACNGT 2 cut(s) 249, 586
BstBAI YACGTR 2 cut(s) 65, 728
BstDEI CTNAG 2 cut(s) 220, 646
BstF5I GGATG 3 cut(s) 207, 216, 793
BstHHI GCGC 1 cut(s) 548
BstKTI GATC 3 cut(s) 458, 704, 880
BstMAI GTCTC 1 cut(s) 510
BstMBI GATC 3 cut(s) 455, 701, 877
BstMWI GCNNNNNNNGC 3 cut(s) 18, 407, 554
BstNI CCWGG 2 cut(s) 690, 810
BstNSI RCATGY 1 cut(s) 367
BstSCI CCNGG 2 cut(s) 688, 808
BstSFI CTRYAG 1 cut(s) 705
BstSLI GKGCMC 1 cut(s) 289
BstSNI TACGTA 1 cut(s) 65
BstV1I GCAGC 2 cut(s) 253, 719
BstV2I GAAGAC 1 cut(s) 225
BstX2I RGATCY 1 cut(s) 701
BstYI RGATCY 1 cut(s) 701
BsuI GTATCC 1 cut(s) 788
BtsCI GGATG 3 cut(s) 207, 216, 793
BveI ACCTGC 1 cut(s) 271
CfoI GCGC 1 cut(s) 548
Cfr13I GGNCC 1 cut(s) 806
CseI GACGC 1 cut(s) 147
CsiI ACCWGGT 1 cut(s) 688
Csp6I GTAC 2 cut(s) 390, 636
CviAII CATG 8 cut(s) 41, 121, 227, 256, 364, 446, 494, 830
CviJI RGCY 7 cut(s) 21, 401, 469, 753, 821, 889, 977
CviKI_1 RGCY 7 cut(s) 21, 401, 469, 753, 821, 889, 977
CviQI GTAC 2 cut(s) 390, 636
DdeI CTNAG 2 cut(s) 220, 646
DpnI GATC 3 cut(s) 457, 703, 879
DpnII GATC 3 cut(s) 455, 701, 877
Eco105I TACGTA 1 cut(s) 65
Eco32I GATATC 1 cut(s) 611
Eco47I GGWCC 1 cut(s) 806
EcoRII CCWGG 2 cut(s) 688, 808
EcoRV GATATC 1 cut(s) 611
EcoT22I ATGCAT 1 cut(s) 84
FaeI CATG 8 cut(s) 44, 124, 230, 259, 367, 449, 497, 833
FalI AAGNNNNNCTT 2 cut(s) 467, 499
FaqI GGGAC 2 cut(s) 580, 847
FatI CATG 8 cut(s) 40, 120, 226, 255, 363, 445, 493, 829
Fnu4HI GCNGC 2 cut(s) 267, 708
FokI GGATG 3 cut(s) 214, 223, 800
Fsp4HI GCNGC 2 cut(s) 267, 708
FspBI CTAG 5 cut(s) 717, 741, 818, 837, 978
GlaI GCGC 1 cut(s) 547
GluI GCNGC 2 cut(s) 267, 708
HgaI GACGC 1 cut(s) 147
HhaI GCGC 1 cut(s) 548
Hin1II CATG 8 cut(s) 44, 124, 230, 259, 367, 449, 497, 833
Hin6I GCGC 1 cut(s) 546
HinP1I GCGC 1 cut(s) 546
HindIII AAGCTT 1 cut(s) 467
HinfI GANTC 3 cut(s) 216, 230, 713
HphI GGTGA 1 cut(s) 638
Hpy166II GTNNAC 1 cut(s) 287
Hpy188I TCNGA 1 cut(s) 111
Hpy188III TCNNGA 3 cut(s) 168, 417, 717
Hpy8I GTNNAC 1 cut(s) 287
Hpy99I CGWCG 2 cut(s) 141, 960
HpyAV CCTTC 5 cut(s) 174, 192, 616, 692, 867
HpyCH4III ACNGT 2 cut(s) 249, 586
HpyCH4IV ACGT 2 cut(s) 64, 727
HpyCH4V TGCA 5 cut(s) 82, 269, 287, 361, 707
HpyF10VI GCNNNNNNNGC 3 cut(s) 18, 407, 554
HpyF3I CTNAG 2 cut(s) 220, 646
HpySE526I ACGT 2 cut(s) 64, 727
Hsp92II CATG 8 cut(s) 44, 124, 230, 259, 367, 449, 497, 833
HspAI GCGC 1 cut(s) 546
Kzo9I GATC 3 cut(s) 455, 701, 877
LmnI GCTCC 3 cut(s) 554, 826, 886
LpnPI CCDG 9 cut(s) 35, 276, 402, 527, 675, 702, 777, 795, 822
Lsp1109I GCAGC 2 cut(s) 253, 719
LweI GCATC 5 cut(s) 192, 359, 649, 721, 778
MabI ACCWGGT 1 cut(s) 688
MaeI CTAG 5 cut(s) 717, 741, 818, 837, 978
MaeII ACGT 2 cut(s) 64, 727
MaeIII GTNAC 6 cut(s) 35, 60, 249, 316, 328, 626
MalI GATC 3 cut(s) 457, 703, 879
MboI GATC 3 cut(s) 455, 701, 877
MboII GAAGA 4 cut(s) 225, 608, 890, 961
MfeI CAATTG 1 cut(s) 924
MflI RGATCY 1 cut(s) 701
MhlI GDGCHC 3 cut(s) 130, 289, 559
MluCI AATT 5 cut(s) 74, 333, 437, 850, 924
MlyI GAGTC 2 cut(s) 225, 239
MnlI CCTC 2 cut(s) 296, 854
Mph1103I ATGCAT 1 cut(s) 84
MseI TTAA 4 cut(s) 77, 755, 849, 894
MspR9I CCNGG 2 cut(s) 690, 810
MunI CAATTG 1 cut(s) 924
MvaI CCWGG 2 cut(s) 690, 810
MwoI GCNNNNNNNGC 3 cut(s) 18, 407, 554
NdeII GATC 3 cut(s) 455, 701, 877
NlaIII CATG 8 cut(s) 44, 124, 230, 259, 367, 449, 497, 833
NlaIV GGNNCC 1 cut(s) 588
NmuCI GTSAC 1 cut(s) 626
NsiI ATGCAT 1 cut(s) 84
NspI RCATGY 1 cut(s) 367
PfeI GAWTC 1 cut(s) 713
PkrI GCNGC 2 cut(s) 268, 709
PleI GAGTC 2 cut(s) 224, 238
PpsI GAGTC 2 cut(s) 224, 238
Ppu21I YACGTR 2 cut(s) 65, 728
PshBI ATTAAT 1 cut(s) 77
Psp6I CCWGG 2 cut(s) 688, 808
PspGI CCWGG 2 cut(s) 688, 808
PspN4I GGNNCC 1 cut(s) 588
PspPI GGNCC 1 cut(s) 806
PstI CTGCAG 1 cut(s) 709
PsuI RGATCY 1 cut(s) 701
RsaI GTAC 2 cut(s) 391, 637
RsaNI GTAC 2 cut(s) 390, 636
SaqAI TTAA 4 cut(s) 77, 755, 849, 894
SatI GCNGC 2 cut(s) 267, 708
Sau3AI GATC 3 cut(s) 455, 701, 877
Sau96I GGNCC 1 cut(s) 806
ScaI AGTACT 1 cut(s) 391
SchI GAGTC 2 cut(s) 225, 239
ScrFI CCNGG 2 cut(s) 690, 810
SduI GDGCHC 3 cut(s) 130, 289, 559
SexAI ACCWGGT 1 cut(s) 688
SfaNI GCATC 5 cut(s) 192, 359, 649, 721, 778
SfcI CTRYAG 1 cut(s) 705
SinI GGWCC 1 cut(s) 806
SnaBI TACGTA 1 cut(s) 65
Sse9I AATT 5 cut(s) 74, 333, 437, 850, 924
SspMI CTAG 5 cut(s) 717, 741, 818, 837, 978
StyD4I CCNGG 2 cut(s) 688, 808
TaaI ACNGT 2 cut(s) 249, 586
TaiI ACGT 2 cut(s) 67, 730
TaqI TCGA 1 cut(s) 613
TasI AATT 5 cut(s) 74, 333, 437, 850, 924
TatI WGTACW 2 cut(s) 389, 635
TfiI GAWTC 1 cut(s) 713
Tru1I TTAA 4 cut(s) 77, 755, 849, 894
Tru9I TTAA 4 cut(s) 77, 755, 849, 894
TseFI GTSAC 1 cut(s) 626
TseI GCWGC 2 cut(s) 266, 707
Tsp45I GTSAC 1 cut(s) 626
TspDTI ATGAA 7 cut(s) 17, 57, 62, 198, 272, 431, 683
VneI GTGCAC 1 cut(s) 285
VpaK11BI GGWCC 1 cut(s) 806
VspI ATTAAT 1 cut(s) 77
XbaI TCTAGA 1 cut(s) 716
XceI RCATGY 1 cut(s) 367
XspI CTAG 5 cut(s) 717, 741, 818, 837, 978
ZrmI AGTACT 1 cut(s) 391
Zsp2I ATGCAT 1 cut(s) 84
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.