Rroxscaffold_2G00137410

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000842
Physical Location & Seq
Forward (+)
75216898 .. 75223864
6967 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00137410.1

Sequence Viewer

Length: 603 bp
ATGCAACTGTTGCAAACCCCCTGGCGTATTCGACAGATGCTGAAGGACATTAGGCTTCTTGCTCAGAAAGTCTCTATCATTGCTTTCTGGCATGTTAAGAGAGAAGCGAATTTTCTTACCGATGCTATTGATAAAATTGAATACCTTCGCCAAGCTCAAAGTTGGAATCGATTCCTTCCTCTATCGCCTTCTTCGACCTTTATGCTAGATAGTTTAGGTGTTGGTTGTGATCGTGGTTTTCGTTTAGAAAGTAGAAGGAACCGCCACCTTCAATATATGCCGACTCGGTCTTCACCCTTCAAGAACATTCGCTTTCTTGTTGTTGCTGCCACCATTATTGGTATTGTGGGAAGTGGAAAAAGTAGAAGGAACCGCCACCGTCGCAGATCTAGAGGAAGCCGCAGGCGAGCGCTCGAAGAAGTTGTCGCCGGATCGCAGAGAACGCGAGTGGCCTTTCGAATGCGGGAAATTCTGCCGGAATACTTACAGGTCCGGCTTTGCCGTTTTCGTCTTTTAGTCGAAACTTGGACCAATCTTTTGAAGGCCTTACACTTTGAACTAGCTCTTTCACTCTTCATAAGAAATGATCCTTATGATGTCTAG
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
RVT_3 zf-RVT

Protein Analysis

200

Amino Acids

23.7

Weight (kDa)

11.56

Isoelectric Point (pI)

70.06

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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: OG0000842)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g15420 FvH4_2g00771 FvH4_3g29363
malus_domestica MD02G1293300.v1.1 MD06G1023000.v1.1 MD09G1232900.v1.1
prunus_persica Prupe.1G181500_v2.0.a1 Prupe.1G572100_v2.0.a1 Prupe.2G095500_v2.0.a1 Prupe.3G150400_v2.0.a1 Prupe.3G156200_v2.0.a1 Prupe.4G274400_v2.0.a1 Prupe.5G070700_v2.0.a1 Prupe.7G038000_v2.0.a1 Prupe.7G164000_v2.0.a1 Prupe.8G056500_v2.0.a1
pyrus_communis pycom04g02040 pycom05g04600 pycom07g05610 pycom08g16130 pycom11g16470 pycom12g07830 pycom15g38190 pycom215g00040
rosa_chinensis RchiOBHm_Chr1g0348881 RchiOBHm_Chr5g0032951 RchiOBHm_Chr6g0273271 RchiOBHm_Chr7g0218191 RchiOBHm_Chr7g0223721
rosa_multiflora Rmu_co8286615.1_g000001 Rmu_sc0001354.1_g000002 Rmu_sc0001925.1_g000003 Rmu_sc0001925.1_g000005 Rmu_sc0002221.1_g000004 Rmu_sc0002316.1_g000096 Rmu_sc0003291.1_g000005 Rmu_sc0003413.1_g000005 Rmu_sc0003542.1_g000011 Rmu_sc0004035.1_g000003 Rmu_sc0004035.1_g000004 Rmu_sc0004145.1_g000016 Rmu_sc0004660.1_g000004 Rmu_sc0005999.1_g000006 Rmu_sc0006123.1_g000002 Rmu_sc0006586.1_g000006 Rmu_sc0006889.1_g000029 Rmu_sc0008035.1_g000014 Rmu_sc0011962.1_g000002 Rmu_sc0029950.1_g000001 Rmu_sc0042409.1_g000001 Rmu_ssc0000238.1_g000013
rosa_roxburghii Rroxscaffold_2G00137410 Rroxscaffold_4G00312010 Rroxscaffold_4G00320800 Rroxscaffold_5G00341720 Rroxscaffold_5G00353530 Rroxscaffold_5G00360290 Rroxscaffold_7G00214170 Rroxscaffold_7G00215920
rosa_rugosa Rorug02G0157000
rosa_samantha Rh4BG196500 Rh6CG346400 Rh7BG241100 Rh7DG316300
rosa_wichuraiana Rw1G003610 Rw7G012170 Rw7G030150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 445
AciI CCGC 4 cut(s) 262, 373, 400, 463
AclWI GGATC 2 cut(s) 439, 581
AcsI RAATTY 2 cut(s) 109, 468
AcuI CTGAAG 1 cut(s) 62
AfeI AGCGCT 1 cut(s) 411
AgsI TTSAA 5 cut(s) 140, 272, 301, 541, 557
AjnI CCWGG 1 cut(s) 20
AluBI AGCT 2 cut(s) 155, 563
AluI AGCT 2 cut(s) 155, 563
Alw26I GTCTC 1 cut(s) 76
AlwI GGATC 2 cut(s) 439, 581
AlwNI CAGNNNCTG 1 cut(s) 40
Aor51HI AGCGCT 1 cut(s) 411
AoxI GGCC 2 cut(s) 450, 543
ApeKI GCWGC 1 cut(s) 326
ApoI RAATTY 2 cut(s) 109, 468
ArsI GACNNNNNNTTYG 4 cut(s) 408, 440, 520, 552
Asp700I GAANNNNTTC 2 cut(s) 144, 170
AspLEI GCGC 1 cut(s) 412
AspS9I GGNCC 2 cut(s) 490, 528
AsuHPI GGTGA 1 cut(s) 285
AsuII TTCGAA 1 cut(s) 457
AvaII GGWCC 2 cut(s) 490, 528
BbsI GAAGAC 1 cut(s) 282
BbvI GCAGC 1 cut(s) 313
BceAI ACGGC 1 cut(s) 486
BcgI CGANNNNNNTGC 2 cut(s) 184, 218
BciT130I CCWGG 1 cut(s) 22
BcoDI GTCTC 1 cut(s) 76
BfaI CTAG 4 cut(s) 206, 390, 560, 601
BfoI RGCGCY 1 cut(s) 413
BglII AGATCT 1 cut(s) 386
BisI GCNGC 2 cut(s) 327, 400
BlsI GCNGC 2 cut(s) 328, 401
Bme1390I CCNGG 1 cut(s) 22
Bme18I GGWCC 2 cut(s) 490, 528
BmgT120I GGNCC 2 cut(s) 490, 528
BmiI GGNNCC 2 cut(s) 260, 371
BmrFI CCNGG 1 cut(s) 22
BmsI GCATC 2 cut(s) 27, 112
BpiI GAAGAC 1 cut(s) 282
Bpu14I TTCGAA 1 cut(s) 457
Bsa29I ATCGAT 1 cut(s) 169
BsaJI CCNNGG 1 cut(s) 20
Bse3DI GCAATG 1 cut(s) 78
BseBI CCWGG 1 cut(s) 22
BseCI ATCGAT 1 cut(s) 169
BseDI CCNNGG 1 cut(s) 20
BseMI GCAATG 1 cut(s) 78
BseMII CTCAG 1 cut(s) 77
BseXI GCAGC 1 cut(s) 313
Bsh1236I CGCG 1 cut(s) 445
BshFI GGCC 2 cut(s) 452, 545
BshVI ATCGAT 1 cut(s) 169
BsiSI CCGG 3 cut(s) 429, 476, 493
BsmAI GTCTC 1 cut(s) 76
BsmI GAATGC 1 cut(s) 465
BsnI GGCC 2 cut(s) 452, 545
Bsp119I TTCGAA 1 cut(s) 457
Bsp143I GATC 4 cut(s) 229, 386, 431, 586
BspACI CCGC 4 cut(s) 262, 373, 400, 463
BspANI GGCC 2 cut(s) 452, 545
BspCNI CTCAG 1 cut(s) 76
BspDI ATCGAT 1 cut(s) 169
BspFNI CGCG 1 cut(s) 445
BspLI GGNNCC 2 cut(s) 260, 371
BspPI GGATC 2 cut(s) 439, 581
BspT104I TTCGAA 1 cut(s) 457
BsrDI GCAATG 1 cut(s) 78
BssECI CCNNGG 1 cut(s) 20
BssMI GATC 4 cut(s) 229, 386, 431, 586
Bst2UI CCWGG 1 cut(s) 22
Bst4CI ACNGT 2 cut(s) 9, 380
Bst6I CTCTTC 1 cut(s) 578
BstAPI GCANNNNNTGC 1 cut(s) 10
BstBI TTCGAA 1 cut(s) 457
BstC8I GCNNGC 2 cut(s) 404, 408
BstDEI CTNAG 1 cut(s) 63
BstFNI CGCG 1 cut(s) 445
BstH2I RGCGCY 1 cut(s) 413
BstHHI GCGC 1 cut(s) 412
BstKTI GATC 4 cut(s) 232, 389, 434, 589
BstMAI GTCTC 1 cut(s) 76
BstMBI GATC 4 cut(s) 229, 386, 431, 586
BstMWI GCNNNNNNNGC 3 cut(s) 10, 381, 442
BstNI CCWGG 1 cut(s) 22
BstNSI RCATGY 1 cut(s) 95
BstSCI CCNGG 1 cut(s) 20
BstUI CGCG 1 cut(s) 445
BstV1I GCAGC 1 cut(s) 313
BstV2I GAAGAC 1 cut(s) 282
BstX2I RGATCY 1 cut(s) 386
BstYI RGATCY 1 cut(s) 386
Bsu15I ATCGAT 1 cut(s) 169
BsuRI GGCC 2 cut(s) 452, 545
BsuTUI ATCGAT 1 cut(s) 169
Cac8I GCNNGC 2 cut(s) 404, 408
CaiI CAGNNNCTG 1 cut(s) 40
CfoI GCGC 1 cut(s) 412
Cfr13I GGNCC 2 cut(s) 490, 528
ClaI ATCGAT 1 cut(s) 169
CspCI CAANNNNNGTGG 2 cut(s) 319, 354
CviAII CATG 1 cut(s) 92
CviJI RGCY 7 cut(s) 55, 155, 399, 452, 496, 545, 563
CviKI_1 RGCY 7 cut(s) 55, 155, 399, 452, 496, 545, 563
DdeI CTNAG 1 cut(s) 63
DpnI GATC 4 cut(s) 231, 388, 433, 588
DpnII GATC 4 cut(s) 229, 386, 431, 586
Eam1104I CTCTTC 1 cut(s) 578
EarI CTCTTC 1 cut(s) 578
Eco147I AGGCCT 1 cut(s) 545
Eco47I GGWCC 2 cut(s) 490, 528
Eco47III AGCGCT 1 cut(s) 411
Eco57I CTGAAG 1 cut(s) 62
EcoRII CCWGG 1 cut(s) 20
FaeI CATG 1 cut(s) 95
FaiI YATR 6 cut(s) 93, 203, 276, 278, 578, 594
FatI CATG 1 cut(s) 91
FauI CCCGC 1 cut(s) 456
Fnu4HI GCNGC 2 cut(s) 327, 400
Fsp4HI GCNGC 2 cut(s) 327, 400
FspBI CTAG 4 cut(s) 206, 390, 560, 601
GlaI GCGC 1 cut(s) 411
GluI GCNGC 2 cut(s) 327, 400
HaeII RGCGCY 1 cut(s) 413
HaeIII GGCC 2 cut(s) 452, 545
HapII CCGG 3 cut(s) 429, 476, 493
HhaI GCGC 1 cut(s) 412
Hin1II CATG 1 cut(s) 95
Hin6I GCGC 1 cut(s) 410
HinP1I GCGC 1 cut(s) 410
HinfI GANTC 3 cut(s) 166, 171, 283
HpaII CCGG 3 cut(s) 429, 476, 493
HphI GGTGA 1 cut(s) 285
Hpy188I TCNGA 1 cut(s) 66
Hpy188III TCNNGA 2 cut(s) 301, 390
Hpy99I CGWCG 1 cut(s) 384
HpyAV CCTTC 9 cut(s) 37, 155, 185, 198, 249, 278, 307, 360, 535
HpyCH4III ACNGT 2 cut(s) 9, 380
HpyCH4V TGCA 2 cut(s) 4, 13
HpyF10VI GCNNNNNNNGC 3 cut(s) 10, 381, 442
HpyF3I CTNAG 1 cut(s) 63
Hsp92II CATG 1 cut(s) 95
HspAI GCGC 1 cut(s) 410
Kzo9I GATC 4 cut(s) 229, 386, 431, 586
LpnPI CCDG 8 cut(s) 7, 34, 73, 388, 442, 473, 489, 506
Lsp1109I GCAGC 1 cut(s) 313
LweI GCATC 2 cut(s) 27, 112
MaeI CTAG 4 cut(s) 206, 390, 560, 601
MalI GATC 4 cut(s) 231, 388, 433, 588
MboI GATC 4 cut(s) 229, 386, 431, 586
MboII GAAGA 4 cut(s) 183, 282, 428, 565
MflI RGATCY 1 cut(s) 386
MluCI AATT 3 cut(s) 109, 135, 468
MlyI GAGTC 1 cut(s) 277
MmeI TCCRAC 1 cut(s) 143
MnlI CCTC 2 cut(s) 189, 386
MroXI GAANNNNTTC 2 cut(s) 144, 170
MseI TTAA 1 cut(s) 96
MspI CCGG 3 cut(s) 429, 476, 493
MspR9I CCNGG 1 cut(s) 22
Mva1269I GAATGC 1 cut(s) 465
MvaI CCWGG 1 cut(s) 22
MvnI CGCG 1 cut(s) 445
MwoI GCNNNNNNNGC 3 cut(s) 10, 381, 442
NdeII GATC 4 cut(s) 229, 386, 431, 586
NlaIII CATG 1 cut(s) 95
NlaIV GGNNCC 2 cut(s) 260, 371
NspI RCATGY 1 cut(s) 95
NspV TTCGAA 1 cut(s) 457
PceI AGGCCT 1 cut(s) 545
PcsI WCGNNNNNNNCGW 2 cut(s) 191, 238
PctI GAATGC 1 cut(s) 465
PdmI GAANNNNTTC 2 cut(s) 144, 170
PfeI GAWTC 2 cut(s) 166, 171
PflFI GACNNNGTC 1 cut(s) 286
PkrI GCNGC 2 cut(s) 328, 401
PleI GAGTC 1 cut(s) 277
PpsI GAGTC 1 cut(s) 277
Psp6I CCWGG 1 cut(s) 20
PspGI CCWGG 1 cut(s) 20
PspN4I GGNNCC 2 cut(s) 260, 371
PspPI GGNCC 2 cut(s) 490, 528
PstNI CAGNNNCTG 1 cut(s) 40
PsuI RGATCY 1 cut(s) 386
PsyI GACNNNGTC 1 cut(s) 286
SaqAI TTAA 1 cut(s) 96
SatI GCNGC 2 cut(s) 327, 400
Sau3AI GATC 4 cut(s) 229, 386, 431, 586
Sau96I GGNCC 2 cut(s) 490, 528
SchI GAGTC 1 cut(s) 277
ScrFI CCNGG 1 cut(s) 22
SetI ASST 7 cut(s) 147, 157, 200, 220, 270, 492, 565
SfaNI GCATC 2 cut(s) 27, 112
SfuI TTCGAA 1 cut(s) 457
SinI GGWCC 2 cut(s) 490, 528
Sse9I AATT 3 cut(s) 109, 135, 468
SseBI AGGCCT 1 cut(s) 545
SsiI CCGC 4 cut(s) 262, 373, 400, 463
SspMI CTAG 4 cut(s) 206, 390, 560, 601
StuI AGGCCT 1 cut(s) 545
StyD4I CCNGG 1 cut(s) 20
TaaI ACNGT 2 cut(s) 9, 380
TaqI TCGA 6 cut(s) 31, 169, 194, 414, 457, 519
TaqII GACCGA 1 cut(s) 276
TasI AATT 3 cut(s) 109, 135, 468
TauI GCSGC 1 cut(s) 402
TfiI GAWTC 2 cut(s) 166, 171
Tru1I TTAA 1 cut(s) 96
Tru9I TTAA 1 cut(s) 96
TseI GCWGC 1 cut(s) 326
TspDTI ATGAA 1 cut(s) 565
Tth111I GACNNNGTC 1 cut(s) 286
VpaK11BI GGWCC 2 cut(s) 490, 528
XapI RAATTY 2 cut(s) 109, 468
XbaI TCTAGA 1 cut(s) 389
XceI RCATGY 1 cut(s) 95
XmnI GAANNNNTTC 2 cut(s) 144, 170
XspI CTAG 4 cut(s) 206, 390, 560, 601
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.