Rh2DG003500

nuclease HARBI1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2D
OG0000468
Physical Location & Seq
Reverse (-)
230972 .. 232930
1959 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG003500.1

Sequence Viewer

Length: 555 bp
ATGGCTCGTAGAAAGTTGTCGAAGACAAAAAGGATTCTTCTAATGCTGGACAATATTAAGGATTTGCTTAACTTTGTCGTGATGATATACATTATGATGTATATCATTGCAGAAAGACATTATCGGAAGTATAGATTGAAATCACCAACTTTTTATGATGCTTTGTCAAGAATTGGAAATGTTCAACGAATGGTGTATGCAAGCGATGGAAGATGCATAAATAGTCTCCGCATGGATAGGCATACATTTAGCTTATTGTGCTCTATGTTACGCACATCTGGTAAATTAAGAGACACAAGAAATGTATCTGTAGATGAAATGGTGGCTATGTTCTTGCATATTCTTGCGCACCATGAAAAGAACAGAATCATACAAGATAGATTTTTGCGTTCTGGGGAAACAATTAGCAGATATTTTAACGCGGTATTAAGAGTAGTCCTATGTCTACAAGGACAATTGTTAAAAACACCAGAACCTGTTCCAGAAAACTCATCTGATGAGAAGTGGAAATGGTTTAAGGTATACAAAATTCTGCTATTTGTTATTACACTATGA
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
No domains found.

Protein Analysis

184

Amino Acids

21.88

Weight (kDa)

10.12

Isoelectric Point (pI)

44.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 60 - 147 1.2e-29 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
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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) 348
AccI GTMKAC 2 cut(s) 445, 522
AccII CGCG 1 cut(s) 422
AciI CCGC 2 cut(s) 229, 422
AcsI RAATTY 1 cut(s) 528
AgsI TTSAA 2 cut(s) 139, 185
AluBI AGCT 1 cut(s) 252
AluI AGCT 1 cut(s) 252
Alw21I GWGCWC 1 cut(s) 263
Alw26I GTCTC 2 cut(s) 230, 285
AlwNI CAGNNNCTG 1 cut(s) 476
ApoI RAATTY 1 cut(s) 528
Asp700I GAANNNNTTC 1 cut(s) 477
AspLEI GCGC 1 cut(s) 349
AsuHPI GGTGA 1 cut(s) 135
BbsI GAAGAC 1 cut(s) 29
Bbv12I GWGCWC 1 cut(s) 263
BccI CCATC 1 cut(s) 200
BcoDI GTCTC 2 cut(s) 230, 285
BfmI CTRYAG 1 cut(s) 309
BmsI GCATC 2 cut(s) 148, 203
BpiI GAAGAC 1 cut(s) 29
BsaBI GATNNNNATC 2 cut(s) 101, 139
Bse3DI GCAATG 1 cut(s) 105
Bse8I GATNNNNATC 2 cut(s) 101, 139
BseJI GATNNNNATC 2 cut(s) 101, 139
BseMI GCAATG 1 cut(s) 105
Bsh1236I CGCG 1 cut(s) 422
BsiHKAI GWGCWC 1 cut(s) 263
BsmAI GTCTC 2 cut(s) 230, 285
Bsp1286I GDGCHC 1 cut(s) 263
BspACI CCGC 2 cut(s) 229, 422
BspFNI CGCG 1 cut(s) 422
BsrDI GCAATG 1 cut(s) 105
BssNAI GTATAC 1 cut(s) 523
Bst1107I GTATAC 1 cut(s) 523
BstC8I GCNNGC 1 cut(s) 202
BstFNI CGCG 1 cut(s) 422
BstHHI GCGC 1 cut(s) 349
BstMAI GTCTC 2 cut(s) 230, 285
BstMWI GCNNNNNNNGC 1 cut(s) 258
BstSFI CTRYAG 1 cut(s) 309
BstUI CGCG 1 cut(s) 422
BstV2I GAAGAC 1 cut(s) 29
BstZ17I GTATAC 1 cut(s) 523
BtgZI GCGATG 1 cut(s) 219
Cac8I GCNNGC 1 cut(s) 202
CaiI CAGNNNCTG 1 cut(s) 476
CfoI GCGC 1 cut(s) 349
CviAII CATG 2 cut(s) 232, 353
CviJI RGCY 3 cut(s) 5, 252, 326
CviKI_1 RGCY 3 cut(s) 5, 252, 326
EcoT22I ATGCAT 1 cut(s) 218
FaeI CATG 2 cut(s) 235, 356
FatI CATG 2 cut(s) 231, 352
FblI GTMKAC 2 cut(s) 445, 522
FspI TGCGCA 1 cut(s) 348
GlaI GCGC 1 cut(s) 348
HhaI GCGC 1 cut(s) 349
Hin1II CATG 2 cut(s) 235, 356
Hin6I GCGC 1 cut(s) 347
HinP1I GCGC 1 cut(s) 347
HinfI GANTC 2 cut(s) 34, 366
HphI GGTGA 1 cut(s) 135
Hpy166II GTNNAC 2 cut(s) 446, 523
Hpy188I TCNGA 2 cut(s) 126, 496
Hpy188III TCNNGA 3 cut(s) 79, 168, 482
Hpy8I GTNNAC 2 cut(s) 446, 523
HpyCH4V TGCA 4 cut(s) 110, 200, 216, 337
HpyF10VI GCNNNNNNNGC 1 cut(s) 258
Hsp92II CATG 2 cut(s) 235, 356
HspAI GCGC 1 cut(s) 347
LpnPI CCDG 6 cut(s) 32, 264, 378, 483, 489, 495
LweI GCATC 2 cut(s) 148, 203
MaeIII GTNAC 1 cut(s) 267
MboII GAAGA 3 cut(s) 29, 34, 222
MfeI CAATTG 1 cut(s) 455
MhlI GDGCHC 1 cut(s) 263
MluCI AATT 5 cut(s) 171, 284, 402, 455, 528
Mph1103I ATGCAT 1 cut(s) 218
MroXI GAANNNNTTC 1 cut(s) 477
MseI TTAA 7 cut(s) 57, 69, 287, 417, 428, 461, 516
MslI CAYNNNNRTG 1 cut(s) 95
MunI CAATTG 1 cut(s) 455
MvnI CGCG 1 cut(s) 422
MwoI GCNNNNNNNGC 1 cut(s) 258
NlaIII CATG 2 cut(s) 235, 356
NsbI TGCGCA 1 cut(s) 348
NsiI ATGCAT 1 cut(s) 218
PdmI GAANNNNTTC 1 cut(s) 477
PfeI GAWTC 2 cut(s) 34, 366
PstNI CAGNNNCTG 1 cut(s) 476
RseI CAYNNNNRTG 1 cut(s) 95
SaqAI TTAA 7 cut(s) 57, 69, 287, 417, 428, 461, 516
SduI GDGCHC 1 cut(s) 263
SetI ASST 3 cut(s) 254, 478, 522
SfaNI GCATC 2 cut(s) 148, 203
SfcI CTRYAG 1 cut(s) 309
SmiMI CAYNNNNRTG 1 cut(s) 95
Sse9I AATT 5 cut(s) 171, 284, 402, 455, 528
SsiI CCGC 2 cut(s) 229, 422
SspI AATATT 1 cut(s) 55
TaqI TCGA 1 cut(s) 20
TasI AATT 5 cut(s) 171, 284, 402, 455, 528
TfiI GAWTC 2 cut(s) 34, 366
Tru1I TTAA 7 cut(s) 57, 69, 287, 417, 428, 461, 516
Tru9I TTAA 7 cut(s) 57, 69, 287, 417, 428, 461, 516
TspDTI ATGAA 2 cut(s) 330, 369
XapI RAATTY 1 cut(s) 528
XmiI GTMKAC 2 cut(s) 445, 522
XmnI GAANNNNTTC 1 cut(s) 477
Zsp2I ATGCAT 1 cut(s) 218
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.