Rh5BG549000

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0000468
Physical Location & Seq
Reverse (-)
87225115 .. 87225438
324 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG549000.1

Sequence Viewer

Length: 324 bp
ATGAATAATGATGTGAGAGACTTGGTGGTTCAAAGTGAAAATGAAAGGAATAGGGATAAGTTACGTAAGAAAAAATTAATGCATATTGTTACAAGGAATGTCACAATCAAAGAAGTTGTGGCTTTATTTTTGCATGTGCTAGGACATAATCTGAAAATAAGTACTATCAAAGCTATCTATGCCTGTTCAGGAGAAACTTTAAGTAGGCAATTTCATCATGTTTTGCGATCAGTAGTCAAGCTTGGGAAGTTATACTTGAAGCAACATGAGTTAGTTCTCAATGAGCGAGACTCTGAGAAGTGGAGACGGTTTCAGGTATTATAA
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

107

Amino Acids

12.67

Weight (kDa)

10.19

Isoelectric Point (pI)

45.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 19 - 80 6.3e-13 Domain of unknown function (DUF8040)
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)
AanI TTATAA 1 cut(s) 322
AfaI GTAC 1 cut(s) 163
AgsI TTSAA 2 cut(s) 32, 259
AluBI AGCT 2 cut(s) 173, 241
AluI AGCT 2 cut(s) 173, 241
Alw26I GTCTC 3 cut(s) 12, 282, 298
AseI ATTAAT 1 cut(s) 77
BcoDI GTCTC 3 cut(s) 12, 282, 298
BfaI CTAG 1 cut(s) 140
BmcAI AGTACT 1 cut(s) 163
BplI GAGNNNNNCTC 2 cut(s) 275, 307
BsaAI YACGTR 1 cut(s) 65
BseMII CTCAG 1 cut(s) 285
BsmAI GTCTC 3 cut(s) 12, 282, 298
BsmBI CGTCTC 1 cut(s) 298
Bsp143I GATC 1 cut(s) 227
BspCNI CTCAG 1 cut(s) 286
BssMI GATC 1 cut(s) 227
Bst4CI ACNGT 1 cut(s) 309
BstBAI YACGTR 1 cut(s) 65
BstDEI CTNAG 1 cut(s) 294
BstKTI GATC 1 cut(s) 230
BstMAI GTCTC 3 cut(s) 12, 282, 298
BstMBI GATC 1 cut(s) 227
BstMWI GCNNNNNNNGC 1 cut(s) 179
BstNSI RCATGY 1 cut(s) 137
BstSNI TACGTA 1 cut(s) 65
Csp6I GTAC 1 cut(s) 162
CviAII CATG 3 cut(s) 134, 218, 266
CviJI RGCY 3 cut(s) 122, 173, 241
CviKI_1 RGCY 3 cut(s) 122, 173, 241
CviQI GTAC 1 cut(s) 162
DdeI CTNAG 1 cut(s) 294
DpnI GATC 1 cut(s) 229
DpnII GATC 1 cut(s) 227
Eco105I TACGTA 1 cut(s) 65
EcoT22I ATGCAT 1 cut(s) 84
Esp3I CGTCTC 1 cut(s) 298
FaeI CATG 3 cut(s) 137, 221, 269
FaiI YATR 8 cut(s) 84, 135, 147, 180, 219, 253, 267, 322
FalI AAGNNNNNCTT 2 cut(s) 239, 271
FatI CATG 3 cut(s) 133, 217, 265
FspBI CTAG 1 cut(s) 140
Hin1II CATG 3 cut(s) 137, 221, 269
HindIII AAGCTT 1 cut(s) 239
HinfI GANTC 1 cut(s) 290
Hpy188I TCNGA 2 cut(s) 153, 295
Hpy188III TCNNGA 1 cut(s) 189
HpyCH4III ACNGT 1 cut(s) 309
HpyCH4IV ACGT 1 cut(s) 64
HpyCH4V TGCA 2 cut(s) 82, 133
HpyF10VI GCNNNNNNNGC 1 cut(s) 179
HpyF3I CTNAG 1 cut(s) 294
HpySE526I ACGT 1 cut(s) 64
Hsp92II CATG 3 cut(s) 137, 221, 269
Kzo9I GATC 1 cut(s) 227
LpnPI CCDG 3 cut(s) 174, 196, 299
MaeI CTAG 1 cut(s) 140
MaeII ACGT 1 cut(s) 64
MaeIII GTNAC 3 cut(s) 60, 88, 100
MalI GATC 1 cut(s) 229
MboI GATC 1 cut(s) 227
MluCI AATT 2 cut(s) 74, 209
MlyI GAGTC 1 cut(s) 284
Mph1103I ATGCAT 1 cut(s) 84
MseI TTAA 2 cut(s) 77, 200
MwoI GCNNNNNNNGC 1 cut(s) 179
NdeII GATC 1 cut(s) 227
NlaIII CATG 3 cut(s) 137, 221, 269
NmuCI GTSAC 1 cut(s) 100
NsiI ATGCAT 1 cut(s) 84
NspI RCATGY 1 cut(s) 137
PleI GAGTC 1 cut(s) 284
PpsI GAGTC 1 cut(s) 284
Ppu21I YACGTR 1 cut(s) 65
PshBI ATTAAT 1 cut(s) 77
PsiI TTATAA 1 cut(s) 322
RsaI GTAC 1 cut(s) 163
RsaNI GTAC 1 cut(s) 162
SaqAI TTAA 2 cut(s) 77, 200
Sau3AI GATC 1 cut(s) 227
ScaI AGTACT 1 cut(s) 163
SchI GAGTC 1 cut(s) 284
SetI ASST 4 cut(s) 67, 175, 243, 318
SnaBI TACGTA 1 cut(s) 65
Sse9I AATT 2 cut(s) 74, 209
SspMI CTAG 1 cut(s) 140
TaaI ACNGT 1 cut(s) 309
TaiI ACGT 1 cut(s) 67
TasI AATT 2 cut(s) 74, 209
TatI WGTACW 1 cut(s) 161
Tru1I TTAA 2 cut(s) 77, 200
Tru9I TTAA 2 cut(s) 77, 200
TseFI GTSAC 1 cut(s) 100
Tsp45I GTSAC 1 cut(s) 100
TspDTI ATGAA 3 cut(s) 17, 57, 203
VspI ATTAAT 1 cut(s) 77
XceI RCATGY 1 cut(s) 137
XspI CTAG 1 cut(s) 140
ZrmI AGTACT 1 cut(s) 163
Zsp2I ATGCAT 1 cut(s) 84
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.