FvH4_1g17131

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb1
OG0000147
Physical Location & Seq
Forward (+)
9916118 .. 9917526
1409 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_1g17131.t1

Sequence Viewer

Length: 822 bp
ATGATGTGTTGGAATAGCCGGGGTAGTTCTCGGCCTGGATTTCAAGCACAGACACTTTATGCTTCTTTTTTTGCTTTAGATGTTATGTGTGTTGTTGACACAAGAACTGATGAAGACCTAGGAAATAAGCTTATAAGCAGTTTGCCTTTTGATTCTTGGTTGGATGTGCCTGCGCAAGGACAGTGTGGTGGTTTATGTCTTTTTTGGAAATCCAGATTTATTAATGTTAAGGTTATTTCTTCCCATGAAAGGTTTATTCACTGTGAGATGGTTGATTTAAATTCTTTTGATAGATGGTTTACTACGTTTGTTTATGCTTACCCTCAAAAAAGACTTCAGCTTGGTCTTTGGAATGAGCTCGCTAATTGTCTTTTGACTAATGATCCTTGGCTTCTTATGGGCGATTTTAACAGTATTATGTGCCCTTCTGAAAAATTAGGAGGCATAGCAACTACTAACAGGTATATGATCGATTTTTGTAATTTTTTGAATGACAAGAATCTTTGCTCCATCCCTAGTATTGGAGTTCCTTTTACCTGGACCAATAATCATAAGGACAACACTGTTATTTATGAAAAGCTGGATAGAGCTTGTGCTAATCCAAGATGGATGCTGAAATTTCCAAATGTTGAAGTTCAAAACTTGCCAATTGATTTCATTAATATTATTAACCCTTGTATTTCTATTGAGGATAATAGTTTGTTAACTGCGCAGGTAACTGATGATGAAATTCTTGAAGCTGTTAAGTCTATTGGTGCTCTTAAGGCTCCAGGACCAGATGGCCTCCATGCAAGTTTTATCAGAATTGCTAGGAGGAAGTGA
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

274

Amino Acids

31.04

Weight (kDa)

5.59

Isoelectric Point (pI)

42.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Exo_endo_phos PF03372 4 - 203 1.5e-06 Endonuclease/Exonuclease/phosphatase family
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: OG0000147)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g10354 FvH4_1g17131 FvH4_2g11611 FvH4_2g33851 FvH4_3g32112 FvH4_3g35052 FvH4_3g44611 FvH4_4g05921 FvH4_4g06411 FvH4_4g06792 FvH4_4g10365 FvH4_4g21422 FvH4_4g22401 FvH4_4g30261 FvH4_5g08843 FvH4_5g14731 FvH4_5g24781 FvH4_5g26231 FvH4_5g31282 FvH4_6g23371 FvH4_6g38511 FvH4_7g01171 FvH4_7g03341 FvH4_7g06171 FvH4_7g32472
prunus_persica Prupe.2G036900_v2.0.a1
pyrus_communis pycom02g19900 pycom03g01520 pycom05g10510 pycom16g23820
rosa_chinensis RchiOBHm_Chr1g0316031 RchiOBHm_Chr1g0342451 RchiOBHm_Chr1g0344541 RchiOBHm_Chr1g0364721 RchiOBHm_Chr2g0133541 RchiOBHm_Chr2g0134511 RchiOBHm_Chr2g0145891 RchiOBHm_Chr2g0163241 RchiOBHm_Chr5g0027201 RchiOBHm_Chr5g0027881 RchiOBHm_Chr5g0047471 RchiOBHm_Chr7g0210901
rosa_laevigata RLG00000011116 RLG00000017964 RLG00000018128 RLG00000018387 RLG00000018829 RLG00000019353 RLG00000028973 RLG00000035870 RLG00000036629
rosa_multiflora Rmu_co8126340.1_g000001 Rmu_co8216750.1_g000001 Rmu_co8222072.1_g000001 Rmu_co8332453.1_g000001 Rmu_co8349913.1_g000001 Rmu_co8405337.1_g000001 Rmu_sc0000041.1_g000012 Rmu_sc0000166.1_g000029 Rmu_sc0000251.1_g000019 Rmu_sc0000271.1_g000028 Rmu_sc0000509.1_g000036 Rmu_sc0000543.1_g000048 Rmu_sc0000808.1_g000003 Rmu_sc0000847.1_g000040 Rmu_sc0000972.1_g000020 Rmu_sc0001260.1_g000001 Rmu_sc0001464.1_g000026 Rmu_sc0001616.1_g000003 Rmu_sc0001669.1_g000001 Rmu_sc0002005.1_g000001 Rmu_sc0002014.1_g000010 Rmu_sc0002082.1_g000033 Rmu_sc0002302.1_g000024 Rmu_sc0002531.1_g000045 Rmu_sc0003276.1_g000002 Rmu_sc0003737.1_g000007 Rmu_sc0003832.1_g000022 Rmu_sc0004080.1_g000011 Rmu_sc0004487.1_g000009 Rmu_sc0004988.1_g000018 Rmu_sc0004988.1_g000019 Rmu_sc0005254.1_g000002 Rmu_sc0005733.1_g000004 Rmu_sc0006413.1_g000006 Rmu_sc0007121.1_g000013 Rmu_sc0007869.1_g000006 Rmu_sc0008035.1_g000015 Rmu_sc0008279.1_g000017 Rmu_sc0008351.1_g000014 Rmu_sc0008957.1_g000007 Rmu_sc0009012.1_g000007 Rmu_sc0010556.1_g000009 Rmu_sc0012889.1_g000003 Rmu_sc0019808.1_g000004 Rmu_sc0028113.1_g000001 Rmu_sc0031202.1_g000001 Rmu_sc0034436.1_g000001 Rmu_sc0034445.1_g000001 Rmu_sc0040044.1_g000001 Rmu_ssc0000062.1_g000032 Rmu_ssc0000372.1_g000018
rosa_roxburghii Rroxscaffold_1G00001520 Rroxscaffold_1G00039990 Rroxscaffold_1G00046370 Rroxscaffold_2G00110140 Rroxscaffold_2G00131420 Rroxscaffold_3G00222390 Rroxscaffold_5G00336040 Rroxscaffold_5G00338000 Rroxscaffold_5G00344030 Rroxscaffold_5G00363460 Rroxscaffold_6G00402000 Rroxscaffold_7G00194940
rosa_rugosa Rorug01G0106500 Rorug01G0111300 Rorug01G0247000 Rorug02G0318100.1 Rorug02G0318200 Rorug02G0459500 Rorug03G0108100 Rorug03G0200500 Rorug03G0232500 Rorug03G0240600 Rorug04G0105300 Rorug04G0256600 Rorug06G0079300 Rorug06G0082700 Rorug06G0095600 Rorug06G0179000 Rorug07G0113500 Rorug07G0271100
rosa_samantha Rh1AG087200 Rh1CG085300 Rh1DG013200 Rh1DG091700 Rh1DG091800 Rh1DG338300 Rh2AG375400 Rh2AG407000 Rh2AG513500 Rh2BG277700 Rh2BG371200 Rh2BG376100 Rh2BG580500 Rh2CG354300 Rh2DG200100 Rh2DG388000 Rh2DG393500 Rh2DG426400 Rh3CG304800 Rh4AG044600 Rh4AG220500 Rh4BG379300 Rh4CG007100 Rh4CG030300 Rh4CG038000 Rh4CG114900 Rh4CG393700 Rh5AG124900 Rh5AG342300 Rh5BG414400 Rh5CG263800 Rh5CG439000 Rh5DG231100 Rh5DG566900 Rh6AG138600 Rh6AG200000 Rh6AG253100 Rh6AG390900 Rh6AG441600 Rh6BG194700 Rh6BG225800 Rh6BG256100 Rh6CG231700 Rh6CG231900 Rh6CG312200 Rh6CG453700 Rh6DG219400 Rh7AG357700 Rh7AG442000 Rh7CG425700 Rh7CG474600 Rh7CG494100 Rh7DG253900 Rh7DG294700 Rh7DG401600 Rh7DG461300
rosa_wichuraiana Rw1G001190 Rw2G047020 Rw4G003490 Rw5G039690 Rw6G010450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 134
Acc16I TGCGCA 2 cut(s) 174, 711
Acc36I ACCTGC 1 cut(s) 703
AclWI GGATC 1 cut(s) 377
AcsI RAATTY 3 cut(s) 280, 617, 729
AcuI CTGAAG 1 cut(s) 320
AfiI CCNNNNNNNGG 3 cut(s) 176, 249, 521
AflII CTTAAG 1 cut(s) 761
AgsI TTSAA 5 cut(s) 44, 490, 632, 638, 737
AjnI CCWGG 3 cut(s) 34, 536, 769
AluBI AGCT 6 cut(s) 130, 340, 358, 580, 590, 740
AluI AGCT 6 cut(s) 130, 340, 358, 580, 590, 740
Alw21I GWGCWC 2 cut(s) 360, 760
AlwI GGATC 1 cut(s) 377
AoxI GGCC 2 cut(s) 32, 781
ApoI RAATTY 3 cut(s) 280, 617, 729
AseI ATTAAT 2 cut(s) 222, 660
AspA2I CCTAGG 1 cut(s) 118
AspLEI GCGC 2 cut(s) 175, 712
AspS9I GGNCC 2 cut(s) 540, 773
AsuC2I CCSGG 1 cut(s) 20
AvaII GGWCC 2 cut(s) 540, 773
AvrII CCTAGG 1 cut(s) 118
BaeGI GKGCMC 1 cut(s) 425
BanII GRGCYC 1 cut(s) 360
BbsI GAAGAC 1 cut(s) 120
Bbv12I GWGCWC 2 cut(s) 360, 760
BccI CCATC 5 cut(s) 262, 288, 518, 600, 773
BciT130I CCWGG 3 cut(s) 36, 538, 771
BcnI CCSGG 1 cut(s) 20
BfaI CTAG 3 cut(s) 119, 516, 810
BfrI CTTAAG 1 cut(s) 761
BfuAI ACCTGC 1 cut(s) 703
BlnI CCTAGG 1 cut(s) 118
Bme1390I CCNGG 4 cut(s) 20, 36, 538, 771
Bme18I GGWCC 2 cut(s) 540, 773
BmgT120I GGNCC 2 cut(s) 540, 773
BmiI GGNNCC 1 cut(s) 768
BmrFI CCNGG 4 cut(s) 20, 36, 538, 771
BmsI GCATC 1 cut(s) 600
BpiI GAAGAC 1 cut(s) 120
BpmI CTGGAG 1 cut(s) 753
BpuMI CCSGG 1 cut(s) 20
Bsa29I ATCGAT 1 cut(s) 471
BsaJI CCNNGG 3 cut(s) 19, 118, 386
Bsc4I CCNNNNNNNGG 3 cut(s) 176, 249, 521
BseBI CCWGG 3 cut(s) 36, 538, 771
BseCI ATCGAT 1 cut(s) 471
BseDI CCNNGG 3 cut(s) 19, 118, 386
BseGI GGATG 3 cut(s) 169, 510, 615
BseLI CCNNNNNNNGG 3 cut(s) 176, 249, 521
BseSI GKGCMC 1 cut(s) 425
BshFI GGCC 2 cut(s) 34, 783
BshVI ATCGAT 1 cut(s) 471
BsiHKAI GWGCWC 2 cut(s) 360, 760
BsiSI CCGG 1 cut(s) 19
BslI CCNNNNNNNGG 3 cut(s) 176, 249, 521
BsnI GGCC 2 cut(s) 34, 783
Bsp1286I GDGCHC 3 cut(s) 360, 425, 760
Bsp143I GATC 2 cut(s) 382, 468
BspANI GGCC 2 cut(s) 34, 783
BspDI ATCGAT 1 cut(s) 471
BspLI GGNNCC 1 cut(s) 768
BspMI ACCTGC 1 cut(s) 703
BspPI GGATC 1 cut(s) 377
BspTI CTTAAG 1 cut(s) 761
BssECI CCNNGG 3 cut(s) 19, 118, 386
BssMI GATC 2 cut(s) 382, 468
BssT1I CCWWGG 2 cut(s) 118, 386
Bst2UI CCWGG 3 cut(s) 36, 538, 771
Bst4CI ACNGT 4 cut(s) 183, 263, 413, 565
BstAFI CTTAAG 1 cut(s) 761
BstC8I GCNNGC 2 cut(s) 171, 360
BstENI CCTNNNNNAGG 1 cut(s) 174
BstF5I GGATG 3 cut(s) 169, 510, 615
BstHHI GCGC 2 cut(s) 175, 712
BstKTI GATC 2 cut(s) 385, 471
BstMBI GATC 2 cut(s) 382, 468
BstMWI GCNNNNNNNGC 1 cut(s) 764
BstNI CCWGG 3 cut(s) 36, 538, 771
BstSCI CCNGG 4 cut(s) 18, 34, 536, 769
BstSLI GKGCMC 1 cut(s) 425
BstV2I GAAGAC 1 cut(s) 120
Bsu15I ATCGAT 1 cut(s) 471
BsuRI GGCC 2 cut(s) 34, 783
BsuTUI ATCGAT 1 cut(s) 471
BtsCI GGATG 3 cut(s) 169, 510, 615
BtsIMutI CAGTG 3 cut(s) 188, 259, 561
BveI ACCTGC 1 cut(s) 703
Cac8I GCNNGC 2 cut(s) 171, 360
CfoI GCGC 2 cut(s) 175, 712
Cfr13I GGNCC 2 cut(s) 540, 773
ClaI ATCGAT 1 cut(s) 471
CviAII CATG 2 cut(s) 245, 788
DpnI GATC 2 cut(s) 384, 470
DpnII GATC 2 cut(s) 382, 468
DraI TTTAAA 1 cut(s) 279
Ecl136II GAGCTC 1 cut(s) 358
Eco130I CCWWGG 2 cut(s) 118, 386
Eco24I GRGCYC 1 cut(s) 360
Eco47I GGWCC 2 cut(s) 540, 773
Eco53kI GAGCTC 1 cut(s) 358
Eco57I CTGAAG 1 cut(s) 320
EcoICRI GAGCTC 1 cut(s) 358
EcoNI CCTNNNNNAGG 1 cut(s) 174
EcoRII CCWGG 3 cut(s) 34, 536, 769
EcoT14I CCWWGG 2 cut(s) 118, 386
EcoT38I GRGCYC 1 cut(s) 360
ErhI CCWWGG 2 cut(s) 118, 386
FaeI CATG 2 cut(s) 248, 791
FatI CATG 2 cut(s) 244, 787
FokI GGATG 3 cut(s) 176, 497, 622
FriOI GRGCYC 1 cut(s) 360
FspBI CTAG 3 cut(s) 119, 516, 810
FspI TGCGCA 2 cut(s) 174, 711
GlaI GCGC 2 cut(s) 174, 711
GsuI CTGGAG 1 cut(s) 753
HaeIII GGCC 2 cut(s) 34, 783
HapII CCGG 1 cut(s) 19
HhaI GCGC 2 cut(s) 175, 712
Hin1II CATG 2 cut(s) 248, 791
Hin6I GCGC 2 cut(s) 173, 710
HinP1I GCGC 2 cut(s) 173, 710
HincII GTYRAC 2 cut(s) 97, 705
HindII GTYRAC 2 cut(s) 97, 705
HindIII AAGCTT 1 cut(s) 128
HinfI GANTC 2 cut(s) 152, 499
HpaI GTTAAC 1 cut(s) 705
HpaII CCGG 1 cut(s) 19
Hpy166II GTNNAC 3 cut(s) 97, 300, 705
Hpy188I TCNGA 2 cut(s) 430, 803
Hpy188III TCNNGA 2 cut(s) 213, 734
Hpy8I GTNNAC 3 cut(s) 97, 300, 705
HpyAV CCTTC 1 cut(s) 435
HpyCH4III ACNGT 4 cut(s) 183, 263, 413, 565
HpyCH4IV ACGT 1 cut(s) 305
HpyCH4V TGCA 1 cut(s) 791
HpyF10VI GCNNNNNNNGC 1 cut(s) 764
HpySE526I ACGT 1 cut(s) 305
Hsp92II CATG 2 cut(s) 248, 791
HspAI GCGC 2 cut(s) 173, 710
KspAI GTTAAC 1 cut(s) 705
Kzo9I GATC 2 cut(s) 382, 468
LmnI GCTCC 2 cut(s) 512, 772
LweI GCATC 1 cut(s) 600
MaeI CTAG 3 cut(s) 119, 516, 810
MaeII ACGT 1 cut(s) 305
MaeIII GTNAC 1 cut(s) 715
MalI GATC 2 cut(s) 384, 470
MboI GATC 2 cut(s) 382, 468
MboII GAAGA 2 cut(s) 125, 231
MfeI CAATTG 1 cut(s) 648
MhlI GDGCHC 3 cut(s) 360, 425, 760
MluCI AATT 8 cut(s) 280, 364, 434, 481, 617, 648, 729, 804
MmeI TCCRAC 1 cut(s) 141
MnlI CCTC 5 cut(s) 333, 434, 682, 794, 807
MseI TTAA 9 cut(s) 222, 228, 278, 408, 660, 669, 704, 744, 762
MspCI CTTAAG 1 cut(s) 761
MspI CCGG 1 cut(s) 19
MspR9I CCNGG 4 cut(s) 20, 36, 538, 771
MunI CAATTG 1 cut(s) 648
MvaI CCWGG 3 cut(s) 36, 538, 771
MwoI GCNNNNNNNGC 1 cut(s) 764
NciI CCSGG 1 cut(s) 20
NdeII GATC 2 cut(s) 382, 468
NlaIII CATG 2 cut(s) 248, 791
NlaIV GGNNCC 1 cut(s) 768
NmeAIII GCCGAG 1 cut(s) 10
NsbI TGCGCA 2 cut(s) 174, 711
PfeI GAWTC 2 cut(s) 152, 499
PfoI TCCNGGA 1 cut(s) 769
PshBI ATTAAT 2 cut(s) 222, 660
PsiI TTATAA 1 cut(s) 134
Psp124BI GAGCTC 1 cut(s) 360
Psp6I CCWGG 3 cut(s) 34, 536, 769
PspGI CCWGG 3 cut(s) 34, 536, 769
PspN4I GGNNCC 1 cut(s) 768
PspPI GGNCC 2 cut(s) 540, 773
SacI GAGCTC 1 cut(s) 360
SaqAI TTAA 9 cut(s) 222, 228, 278, 408, 660, 669, 704, 744, 762
Sau3AI GATC 2 cut(s) 382, 468
Sau96I GGNCC 2 cut(s) 540, 773
ScrFI CCNGG 4 cut(s) 20, 36, 538, 771
SduI GDGCHC 3 cut(s) 360, 425, 760
SfaNI GCATC 1 cut(s) 600
SinI GGWCC 2 cut(s) 540, 773
SmiI ATTTAAAT 1 cut(s) 279
SmlI CTYRAG 1 cut(s) 761
SmoI CTYRAG 1 cut(s) 761
Sse9I AATT 8 cut(s) 280, 364, 434, 481, 617, 648, 729, 804
SspI AATATT 1 cut(s) 664
SspMI CTAG 3 cut(s) 119, 516, 810
SstI GAGCTC 1 cut(s) 360
StyD4I CCNGG 4 cut(s) 18, 34, 536, 769
StyI CCWWGG 2 cut(s) 118, 386
SwaI ATTTAAAT 1 cut(s) 279
TaaI ACNGT 4 cut(s) 183, 263, 413, 565
TaiI ACGT 1 cut(s) 308
TaqI TCGA 1 cut(s) 471
TasI AATT 8 cut(s) 280, 364, 434, 481, 617, 648, 729, 804
TfiI GAWTC 2 cut(s) 152, 499
Tru1I TTAA 9 cut(s) 222, 228, 278, 408, 660, 669, 704, 744, 762
Tru9I TTAA 9 cut(s) 222, 228, 278, 408, 660, 669, 704, 744, 762
TscAI CASTG 3 cut(s) 188, 266, 568
TspDTI ATGAA 5 cut(s) 126, 261, 588, 646, 741
TspRI CASTG 3 cut(s) 188, 266, 568
Vha464I CTTAAG 1 cut(s) 761
VpaK11BI GGWCC 2 cut(s) 540, 773
VspI ATTAAT 2 cut(s) 222, 660
XagI CCTNNNNNAGG 1 cut(s) 174
XapI RAATTY 3 cut(s) 280, 617, 729
XmaJI CCTAGG 1 cut(s) 118
XspI CTAG 3 cut(s) 119, 516, 810
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.