Rw1G003610

ribonuclease H protein At1g65750

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0000842
Physical Location & Seq
Forward (+)
6735578 .. 6736306
729 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G003610.1

Sequence Viewer

Length: 729 bp
ATGAGCTGGGATTTTGGGTTCAGAAGAAACTTAAATGATCAAGAGATTGAGGAGTTTGCCTCGCTGATGGTTAAGCTAGAAAATGTCCGATTAGTGGAGTCCAAACCAGCTGAAAGGAGGTGGAAGCTTGAGCCTAATGGGAAATTCTCTTGCAAATCTTTCCATAGCTTCTTAATTAGTGGTGGATCAGATCCAATTTTTCCTCCTGCAAAGTTTATTTGGAAGGTCAAGGTCCCTACTAAGGTGAAGATTTTGGGATGGCTTGTGGTACTGGGGAAGACAAATACATGTGATGTTCTTCAAAGGAGAAGACCAGGAAGTTGTTTTTCTCCTCACTGGTGCATTTTATGCAAAGCTCAAGGGGAAAGTGCTGATCATGTCTTTGTGCATTGTGAAGTGGCTAATTTCTTATGGAAAAAATTATTTTGGGAAGCAAGAGTGGACTGGACAACTCCATTAGAAAGAAATGACTTGCTAAGAGAAAACCCCATAGCGTTTGGTAAAGGTAAAAAGGCCAGAACCCTTTGGGGTTGTGGGGTGCTAGCTGTAGTTTGGGTGGTCTGGATGGAAAGAAATAAAAGATTATTTGAAAACTATGGAGGGGTGGAGAAGGAAGACCTGTGGGAGAGAGTCAAGTTTTGGGCATCCTTATGGGTTTCTATTTCTAAGGAATTCAAGGATTATAATCTTTCTTCCACTATTCTTAACTGGCAAGCAGCTGTAGTATAA
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
DUF4283 RVT_1 RVT_3 zf-RVT

Protein Analysis

242

Amino Acids

28.26

Weight (kDa)

9.33

Isoelectric Point (pI)

44.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 49 - 138 3.2e-17 zinc-binding in reverse transcriptase
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)
AanI TTATAA 1 cut(s) 684
AclWI GGATC 2 cut(s) 185, 193
AcsI RAATTY 2 cut(s) 143, 671
AfaI GTAC 1 cut(s) 270
AfiI CCNNNNNNNGG 2 cut(s) 94, 241
AflIII ACRYGT 1 cut(s) 287
AgsI TTSAA 3 cut(s) 302, 590, 676
AjnI CCWGG 1 cut(s) 313
AloI GAACNNNNNNTCC 1 cut(s) 34
AluBI AGCT 8 cut(s) 6, 76, 110, 127, 168, 356, 545, 719
AluI AGCT 8 cut(s) 6, 76, 110, 127, 168, 356, 545, 719
AlwI GGATC 2 cut(s) 185, 193
AoxI GGCC 1 cut(s) 513
ApeKI GCWGC 1 cut(s) 716
ApoI RAATTY 2 cut(s) 143, 671
AspS9I GGNCC 1 cut(s) 232
AsuHPI GGTGA 1 cut(s) 256
AsuNHI GCTAGC 1 cut(s) 541
AvaII GGWCC 1 cut(s) 232
BbsI GAAGAC 3 cut(s) 284, 316, 621
BccI CCATC 3 cut(s) 61, 252, 559
BciT130I CCWGG 1 cut(s) 315
BclI TGATCA 2 cut(s) 37, 373
BfaI CTAG 2 cut(s) 77, 542
BfmI CTRYAG 2 cut(s) 546, 720
BisI GCNGC 1 cut(s) 717
BlsI GCNGC 1 cut(s) 718
Bme1390I CCNGG 1 cut(s) 315
Bme18I GGWCC 1 cut(s) 232
BmgT120I GGNCC 1 cut(s) 232
BmiI GGNNCC 1 cut(s) 234
BmrFI CCNGG 1 cut(s) 315
BmrI ACTGGG 1 cut(s) 281
BmsI GCATC 1 cut(s) 653
BmtI GCTAGC 1 cut(s) 545
BmuI ACTGGG 1 cut(s) 281
BpiI GAAGAC 3 cut(s) 284, 316, 621
BplI GAGNNNNNCTC 2 cut(s) 44, 76
BpuEI CTTGAG 2 cut(s) 149, 342
BsaBI GATNNNNATC 1 cut(s) 684
Bsc4I CCNNNNNNNGG 2 cut(s) 94, 241
Bse1I ACTGG 4 cut(s) 276, 341, 449, 713
Bse8I GATNNNNATC 1 cut(s) 684
BseBI CCWGG 1 cut(s) 315
BseGI GGATG 3 cut(s) 263, 570, 644
BseJI GATNNNNATC 1 cut(s) 684
BseLI CCNNNNNNNGG 2 cut(s) 94, 241
BseNI ACTGG 4 cut(s) 276, 341, 449, 713
BseRI GAGGAG 2 cut(s) 65, 321
BseYI CCCAGC 1 cut(s) 6
BshFI GGCC 1 cut(s) 515
BslFI GGGAC 1 cut(s) 218
BslI CCNNNNNNNGG 2 cut(s) 94, 241
BsmFI GGGAC 1 cut(s) 218
BsnI GGCC 1 cut(s) 515
Bsp143I GATC 4 cut(s) 37, 185, 190, 373
BspANI GGCC 1 cut(s) 515
BspLI GGNNCC 1 cut(s) 234
BspOI GCTAGC 1 cut(s) 545
BspPI GGATC 2 cut(s) 185, 193
BsrI ACTGG 4 cut(s) 276, 341, 449, 713
BssMI GATC 4 cut(s) 37, 185, 190, 373
Bst2UI CCWGG 1 cut(s) 315
BstAPI GCANNNNNTGC 1 cut(s) 348
BstC8I GCNNGC 2 cut(s) 543, 714
BstDEI CTNAG 3 cut(s) 240, 476, 666
BstF5I GGATG 3 cut(s) 263, 570, 644
BstKTI GATC 4 cut(s) 40, 188, 193, 376
BstMBI GATC 4 cut(s) 37, 185, 190, 373
BstMWI GCNNNNNNNGC 1 cut(s) 348
BstNI CCWGG 1 cut(s) 315
BstNSI RCATGY 1 cut(s) 291
BstSCI CCNGG 1 cut(s) 313
BstSFI CTRYAG 2 cut(s) 546, 720
BstV2I GAAGAC 3 cut(s) 284, 316, 621
BstX2I RGATCY 1 cut(s) 190
BstYI RGATCY 1 cut(s) 190
BsuRI GGCC 1 cut(s) 515
BtsCI GGATG 3 cut(s) 263, 570, 644
BtsIMutI CAGTG 1 cut(s) 334
Cac8I GCNNGC 2 cut(s) 543, 714
Cfr13I GGNCC 1 cut(s) 232
Csp6I GTAC 1 cut(s) 269
CviAII CATG 2 cut(s) 288, 377
CviQI GTAC 1 cut(s) 269
DdeI CTNAG 3 cut(s) 240, 476, 666
DpnI GATC 4 cut(s) 39, 187, 192, 375
DpnII GATC 4 cut(s) 37, 185, 190, 373
Eco47I GGWCC 1 cut(s) 232
EcoO109I RGGNCCY 1 cut(s) 232
EcoRI GAATTC 1 cut(s) 671
EcoRII CCWGG 1 cut(s) 313
FaeI CATG 2 cut(s) 291, 380
FaqI GGGAC 1 cut(s) 218
FatI CATG 2 cut(s) 287, 376
FbaI TGATCA 2 cut(s) 37, 373
Fnu4HI GCNGC 1 cut(s) 717
FokI GGATG 3 cut(s) 270, 577, 631
Fsp4HI GCNGC 1 cut(s) 717
FspBI CTAG 2 cut(s) 77, 542
GluI GCNGC 1 cut(s) 717
GsaI CCCAGC 1 cut(s) 10
HaeIII GGCC 1 cut(s) 515
Hin1II CATG 2 cut(s) 291, 380
HindIII AAGCTT 1 cut(s) 125
HinfI GANTC 2 cut(s) 98, 630
HphI GGTGA 1 cut(s) 256
Hpy166II GTNNAC 1 cut(s) 442
Hpy188I TCNGA 3 cut(s) 23, 89, 190
Hpy188III TCNNGA 2 cut(s) 41, 562
Hpy8I GTNNAC 1 cut(s) 442
HpyAV CCTTC 2 cut(s) 217, 604
HpyCH4V TGCA 5 cut(s) 153, 209, 342, 351, 388
HpyF10VI GCNNNNNNNGC 1 cut(s) 348
HpyF3I CTNAG 3 cut(s) 240, 476, 666
Hsp92II CATG 2 cut(s) 291, 380
Ksp22I TGATCA 2 cut(s) 37, 373
Kzo9I GATC 4 cut(s) 37, 185, 190, 373
LweI GCATC 1 cut(s) 653
MaeI CTAG 2 cut(s) 77, 542
MalI GATC 4 cut(s) 39, 187, 192, 375
MboI GATC 4 cut(s) 37, 185, 190, 373
MboII GAAGA 7 cut(s) 36, 259, 289, 290, 321, 626, 684
MflI RGATCY 1 cut(s) 190
MluCI AATT 6 cut(s) 143, 174, 195, 403, 419, 671
MlyI GAGTC 2 cut(s) 107, 639
MnlI CCTC 6 cut(s) 43, 70, 111, 213, 342, 593
MseI TTAA 4 cut(s) 32, 72, 173, 705
MslI CAYNNNNRTG 1 cut(s) 649
MspA1I CMGCKG 2 cut(s) 110, 719
MspR9I CCNGG 1 cut(s) 315
MvaI CCWGG 1 cut(s) 315
MwoI GCNNNNNNNGC 1 cut(s) 348
NdeII GATC 4 cut(s) 37, 185, 190, 373
NheI GCTAGC 1 cut(s) 541
NlaIII CATG 2 cut(s) 291, 380
NlaIV GGNNCC 1 cut(s) 234
NspI RCATGY 1 cut(s) 291
PciI ACATGT 1 cut(s) 287
PkrI GCNGC 1 cut(s) 718
PleI GAGTC 2 cut(s) 106, 638
PpsI GAGTC 2 cut(s) 106, 638
PpuMI RGGWCCY 1 cut(s) 232
PscI ACATGT 1 cut(s) 287
PsiI TTATAA 1 cut(s) 684
Psp5II RGGWCCY 1 cut(s) 232
Psp6I CCWGG 1 cut(s) 313
PspFI CCCAGC 1 cut(s) 6
PspGI CCWGG 1 cut(s) 313
PspN4I GGNNCC 1 cut(s) 234
PspPI GGNCC 1 cut(s) 232
PspPPI RGGWCCY 1 cut(s) 232
PsuI RGATCY 1 cut(s) 190
PvuII CAGCTG 2 cut(s) 110, 719
RsaI GTAC 1 cut(s) 270
RsaNI GTAC 1 cut(s) 269
RseI CAYNNNNRTG 1 cut(s) 649
SaqAI TTAA 4 cut(s) 32, 72, 173, 705
SatI GCNGC 1 cut(s) 717
Sau3AI GATC 4 cut(s) 37, 185, 190, 373
Sau96I GGNCC 1 cut(s) 232
SchI GAGTC 2 cut(s) 107, 639
ScrFI CCNGG 1 cut(s) 315
SfaNI GCATC 1 cut(s) 653
SfcI CTRYAG 2 cut(s) 546, 720
SinI GGWCC 1 cut(s) 232
SmiMI CAYNNNNRTG 1 cut(s) 649
SmlI CTYRAG 2 cut(s) 128, 357
SmoI CTYRAG 2 cut(s) 128, 357
Sse9I AATT 6 cut(s) 143, 174, 195, 403, 419, 671
SspMI CTAG 2 cut(s) 77, 542
StyD4I CCNGG 1 cut(s) 313
TasI AATT 6 cut(s) 143, 174, 195, 403, 419, 671
Tru1I TTAA 4 cut(s) 32, 72, 173, 705
Tru9I TTAA 4 cut(s) 32, 72, 173, 705
TscAI CASTG 1 cut(s) 341
TseI GCWGC 1 cut(s) 716
TspRI CASTG 1 cut(s) 341
VpaK11BI GGWCC 1 cut(s) 232
XapI RAATTY 2 cut(s) 143, 671
XceI RCATGY 1 cut(s) 291
XspI CTAG 2 cut(s) 77, 542
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.