FvH4_3g35051

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000194
Physical Location & Seq
Reverse (-)
30268399 .. 30270156
1758 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g35051.t1

Sequence Viewer

Length: 1131 bp
ATGGAGATGAATAAGGATTTATTGGCCCCTTTCTCTATGGATGAAGTTAAAGATGCAGCCTTTCAGTTGGGAGCTTTGAAAGCCCCAGGCCCCGATGGCTGTCCTGGGTTGTTTTATAAGAAGTATTGGTCGATTGTGAATGATATTGTGACAGCTTCGGTTGTAGATTTCCTTAATGGTCAAGATAACATTCTGCTGGCACATGAAGCCTATCATTACTTGCGGTTGAAAAAAGAAGGTGATGTTCATGAATTGGGTTTGAAACTCGACATGAACAAGGCTTACGACCGTGTTGAATGGGATTTCCTTGAAGCTACATTGGTTCGGTTTGGTTTTGATAGAAGGTGGATCAATCTTATCATGTCCTATGTCACAACAGGTTCTTTCTCTATAGTCTTAAATGGAAATCCTGGAAACTTTTTCTACCCAAGTCGAGGATTACGTCAAGAGAATCCTGGAAAGTACCTAGGTCTCCCAACCTTTTGGGGACGATCTAAGTCTCAAGCTCTAGGCTATATAAAGGACAGAATTTCAGGAAAAATCAATGGGTGGAAAGAAAAGTCCATTTCACAAGCAGGGAAGACTGTGCTCATAAAAGCAGTGGCTTTAGCAGTTCCTTCCTTTCCGATGACATGCTTCAGTTGGTTACATCTCTGCAAATCTAAGGAGGAAGGAGGGTTGGGTTTTCGAGACCTTCATCACTTTAATCTTGCTCTCCTAGCCAAGCAGGCTTGGAGACTTATTGAAAATCCACAGTCAATGTGGGCAAGAGTTCTCAAGGCAAGGTATTTTCCTAAGGTTGGTTTTTCAGAAGCTAAAAAGAGGCATCGGGCTTCATGGGGATGGTCTTGCCTCCTGGAAGCCAGAGATTTTGTCACAAAAAAGGGGTGTTGGCATGTTATCAACGGTTCATCTATAAATTTATGGAAGGATCAGTGGTTACCACCTCCCAATATAGGTTGTTTACAATCTATTTCACCGATCCCGGATGATGCCCCAACACTGGTCAGTGATTTAATTGACAGAGAAAACAGGTCTTGGAATTTGGATACAATTCTACACCTACTCAACCCAATTGATGTCAACAGAATTCTTTCTATTCCAATTGGTCCTGGCGTAGCTAGGGAATGA
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-CCHC_4 zf-RVT

Protein Analysis

377

Amino Acids

42.6

Weight (kDa)

9.14

Isoelectric Point (pI)

39.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 79 - 149 5.9e-06 Reverse transcriptase (RNA-dependent DNA polymerase)
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: OG0000194)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G34320 AT4G29090 AT5G42965
fragaria_vesca FvH4_1g19471 FvH4_1g29471 FvH4_1g29601 FvH4_2g04611 FvH4_2g05763 FvH4_2g11451 FvH4_2g11841 FvH4_3g10391 FvH4_3g21491 FvH4_3g21492 FvH4_3g32111 FvH4_3g35051 FvH4_4g06793 FvH4_5g08844 FvH4_5g15942 FvH4_5g18751 FvH4_5g27367 FvH4_6g11612 FvH4_6g20242 FvH4_6g27671 FvH4_6g31921 FvH4_7g32463
malus_domestica MD06G1107000.v1.1 MD07G1135800.v1.1 MD08G1205700.v1.1
prunus_persica Prupe.1G202000_v2.0.a1 Prupe.2G049100_v2.0.a1 Prupe.2G060500_v2.0.a1 Prupe.3G120300_v2.0.a1 Prupe.3G135000_v2.0.a1 Prupe.6G087800_v2.0.a1 Prupe.6G158500_v2.0.a1 Prupe.6G353900_v2.0.a1 Prupe.7G008600_v2.0.a1 Prupe.8G090500_v2.0.a1
pyrus_communis pycom01g21690 pycom02g19910 pycom04g18080 pycom07g08600 pycom07g18710 pycom07g26560 pycom08g03130 pycom08g13950 pycom09g06380 pycom10g13390 pycom10g22280 pycom11g04440 pycom11g10940 pycom12g04710 pycom13g08790 pycom15g31740 pycom17g14740 pycom17g24980
rosa_chinensis RchiOBHm_Chr1g0327801 RchiOBHm_Chr1g0347181 RchiOBHm_Chr1g0348821 RchiOBHm_Chr2g0157831 RchiOBHm_Chr5g0040851 RchiOBHm_Chr6g0249781 RchiOBHm_Chr7g0208461 RchiOBHm_Chr7g0210911 RchiOBHm_Chr7g0219141
rosa_laevigata RLG00000034326
rosa_multiflora Rmu_co8140276.1_g000001 Rmu_co8282095.1_g000001 Rmu_co8303311.1_g000001 Rmu_co8314215.1_g000001 Rmu_co8345435.1_g000001 Rmu_co8461745.1_g000001 Rmu_sc0000315.1_g000040 Rmu_sc0000487.1_g000014 Rmu_sc0000690.1_g000002 Rmu_sc0000808.1_g000001 Rmu_sc0000938.1_g000009 Rmu_sc0001260.1_g000002 Rmu_sc0001534.1_g000008 Rmu_sc0001669.1_g000003 Rmu_sc0001685.1_g000050 Rmu_sc0001838.1_g000007 Rmu_sc0002193.1_g000025 Rmu_sc0002308.1_g000058 Rmu_sc0002322.1_g000018 Rmu_sc0002529.1_g000008 Rmu_sc0002531.1_g000043 Rmu_sc0002754.1_g000022 Rmu_sc0002902.1_g000055 Rmu_sc0003627.1_g000005 Rmu_sc0003743.1_g000003 Rmu_sc0003765.1_g000016 Rmu_sc0003941.1_g000020 Rmu_sc0004038.1_g000011 Rmu_sc0004329.1_g000010 Rmu_sc0004476.1_g000002 Rmu_sc0004904.1_g000022 Rmu_sc0004988.1_g000017 Rmu_sc0005217.1_g000006 Rmu_sc0005257.1_g000010 Rmu_sc0005285.1_g000008 Rmu_sc0005687.1_g000001 Rmu_sc0006380.1_g000020 Rmu_sc0006922.1_g000004 Rmu_sc0007398.1_g000007 Rmu_sc0008279.1_g000019 Rmu_sc0009139.1_g000004 Rmu_sc0009158.1_g000001 Rmu_sc0010099.1_g000002 Rmu_sc0019043.1_g000001 Rmu_sc0022037.1_g000001 Rmu_sc0023291.1_g000001 Rmu_sc0031928.1_g000001 Rmu_sc0034436.1_g000002 Rmu_ssc0000126.1_g000001 Rmu_ssc0000151.1_g000016 Rmu_ssc0000152.1_g000009 Rmu_ssc0000395.1_g000031
rosa_roxburghii Rroxscaffold_1G00056570 Rroxscaffold_1G00058460 Rroxscaffold_2G00106120 Rroxscaffold_2G00106260 Rroxscaffold_6G00399080
rosa_rugosa Rorug02G0173300 Rorug02G0225600 Rorug03G0083300 Rorug03G0104900 Rorug04G0256500 Rorug05G0342600 Rorug06G0006200 Rorug06G0095200 Rorug06G0095600 Rorug06G0111500 Rorug07G0001200 Rorug07G0183100 Rorug07G0183100 Rorug07G0209000
rosa_samantha Rh2DG065400 Rh3DG315900 Rh4AG106100 Rh4BG362100 Rh4CG030200 Rh4DG239000 Rh4DG294000 Rh6DG304800 Rh7DG149500
rosa_wichuraiana Rw1G018070 Rw1G021220 Rw1G021820 Rw1G026430 Rw2G050800 Rw3G023330 Rw6G010050 Rw6G010440 Rw7G031930 Rw7G033860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 117
AciI CCGC 1 cut(s) 223
AclWI GGATC 3 cut(s) 356, 939, 976
AcsI RAATTY 4 cut(s) 528, 919, 1042, 1089
AcuI CTGAAG 1 cut(s) 622
AfaI GTAC 1 cut(s) 464
AfiI CCNNNNNNNGG 4 cut(s) 434, 800, 956, 1003
AgsI TTSAA 6 cut(s) 79, 229, 262, 296, 311, 746
AjnI CCWGG 6 cut(s) 85, 103, 409, 454, 855, 1111
AluBI AGCT 6 cut(s) 74, 155, 314, 506, 815, 1121
AluI AGCT 6 cut(s) 74, 155, 314, 506, 815, 1121
Alw21I GWGCWC 1 cut(s) 591
Alw26I GTCTC 4 cut(s) 476, 504, 684, 730
AlwI GGATC 3 cut(s) 356, 939, 976
AoxI GGCC 2 cut(s) 24, 88
ApeKI GCWGC 1 cut(s) 56
ApoI RAATTY 4 cut(s) 528, 919, 1042, 1089
Asp700I GAANNNNTTC 1 cut(s) 1093
AspA2I CCTAGG 1 cut(s) 466
AspS9I GGNCC 3 cut(s) 25, 89, 1109
AsuC2I CCSGG 1 cut(s) 986
AsuHPI GGTGA 2 cut(s) 251, 969
AvaII GGWCC 1 cut(s) 1109
AvrII CCTAGG 1 cut(s) 466
AxyI CCTNAGG 1 cut(s) 795
BbsI GAAGAC 1 cut(s) 587
Bbv12I GWGCWC 1 cut(s) 591
BbvI GCAGC 1 cut(s) 68
BccI CCATC 2 cut(s) 89, 837
BciT130I CCWGG 6 cut(s) 87, 105, 411, 456, 857, 1113
BciVI GTATCC 1 cut(s) 1042
BcnI CCSGG 1 cut(s) 986
BcoDI GTCTC 4 cut(s) 476, 504, 684, 730
BfaI CTAG 4 cut(s) 467, 509, 719, 1122
BfmI CTRYAG 1 cut(s) 390
BfuI GTATCC 1 cut(s) 1042
BglI GCCNNNNNGGC 2 cut(s) 96, 728
BisI GCNGC 1 cut(s) 57
BlnI CCTAGG 1 cut(s) 466
BlsI GCNGC 1 cut(s) 58
Bme1390I CCNGG 7 cut(s) 87, 105, 411, 456, 857, 986, 1113
Bme18I GGWCC 1 cut(s) 1109
BmgT120I GGNCC 3 cut(s) 25, 89, 1109
BmiI GGNNCC 2 cut(s) 27, 91
BmrFI CCNGG 7 cut(s) 87, 105, 411, 456, 857, 986, 1113
BmsI GCATC 3 cut(s) 43, 835, 982
BpiI GAAGAC 1 cut(s) 587
BpuEI CTTGAG 2 cut(s) 486, 761
BpuMI CCSGG 1 cut(s) 986
BsaI GGTCTC 2 cut(s) 476, 684
BsaJI CCNNGG 3 cut(s) 85, 104, 466
Bsc4I CCNNNNNNNGG 4 cut(s) 434, 800, 956, 1003
Bse1I ACTGG 1 cut(s) 1008
Bse21I CCTNAGG 1 cut(s) 795
BseBI CCWGG 6 cut(s) 87, 105, 411, 456, 857, 1113
BseDI CCNNGG 3 cut(s) 85, 104, 466
BseGI GGATG 3 cut(s) 46, 848, 994
BseLI CCNNNNNNNGG 4 cut(s) 434, 800, 956, 1003
BseNI ACTGG 1 cut(s) 1008
BseXI GCAGC 1 cut(s) 68
Bsh1285I CGRYCG 1 cut(s) 289
BshFI GGCC 2 cut(s) 26, 90
BsiEI CGRYCG 1 cut(s) 289
BsiHKAI GWGCWC 1 cut(s) 591
BsiSI CCGG 1 cut(s) 986
BslFI GGGAC 1 cut(s) 501
BslI CCNNNNNNNGG 4 cut(s) 434, 800, 956, 1003
BsmAI GTCTC 4 cut(s) 476, 504, 684, 730
BsmFI GGGAC 1 cut(s) 501
BsnI GGCC 2 cut(s) 26, 90
Bso31I GGTCTC 2 cut(s) 476, 684
Bsp1286I GDGCHC 1 cut(s) 591
Bsp143I GATC 4 cut(s) 348, 491, 931, 981
BspACI CCGC 1 cut(s) 223
BspANI GGCC 2 cut(s) 26, 90
BspHI TCATGA 1 cut(s) 247
BspLI GGNNCC 2 cut(s) 27, 91
BspPI GGATC 3 cut(s) 356, 939, 976
BspTNI GGTCTC 2 cut(s) 476, 684
BsrI ACTGG 1 cut(s) 1008
BssECI CCNNGG 3 cut(s) 85, 104, 466
BssMI GATC 4 cut(s) 348, 491, 931, 981
BssT1I CCWWGG 1 cut(s) 466
Bst2UI CCWGG 6 cut(s) 87, 105, 411, 456, 857, 1113
Bst4CI ACNGT 4 cut(s) 290, 586, 756, 908
BstC8I GCNNGC 2 cut(s) 198, 729
BstDEI CTNAG 3 cut(s) 495, 663, 795
BstEII GGTNACC 1 cut(s) 939
BstF5I GGATG 3 cut(s) 46, 848, 994
BstKTI GATC 4 cut(s) 351, 494, 934, 984
BstMAI GTCTC 4 cut(s) 476, 504, 684, 730
BstMBI GATC 4 cut(s) 348, 491, 931, 981
BstMCI CGRYCG 1 cut(s) 289
BstMWI GCNNNNNNNGC 5 cut(s) 80, 96, 206, 719, 728
BstNI CCWGG 6 cut(s) 87, 105, 411, 456, 857, 1113
BstNSI RCATGY 2 cut(s) 636, 899
BstPI GGTNACC 1 cut(s) 939
BstSCI CCNGG 7 cut(s) 85, 103, 409, 454, 855, 984, 1111
BstSFI CTRYAG 1 cut(s) 390
BstV1I GCAGC 1 cut(s) 68
BstV2I GAAGAC 1 cut(s) 587
BstXI CCANNNNNNTGG 1 cut(s) 483
Bsu36I CCTNAGG 1 cut(s) 795
BsuI GTATCC 1 cut(s) 1042
BsuRI GGCC 2 cut(s) 26, 90
BtsCI GGATG 3 cut(s) 46, 848, 994
BtsI GCAGTG 1 cut(s) 606
BtsIMutI CAGTG 4 cut(s) 606, 941, 1001, 1015
Cac8I GCNNGC 2 cut(s) 198, 729
CciI TCATGA 1 cut(s) 247
Cfr13I GGNCC 3 cut(s) 25, 89, 1109
Csp6I GTAC 1 cut(s) 463
CviAII CATG 7 cut(s) 203, 248, 271, 361, 633, 837, 896
CviQI GTAC 1 cut(s) 463
DdeI CTNAG 3 cut(s) 495, 663, 795
DpnI GATC 4 cut(s) 350, 493, 933, 983
DpnII GATC 4 cut(s) 348, 491, 931, 981
Eco130I CCWWGG 1 cut(s) 466
Eco31I GGTCTC 2 cut(s) 476, 684
Eco47I GGWCC 1 cut(s) 1109
Eco57I CTGAAG 1 cut(s) 622
Eco81I CCTNAGG 1 cut(s) 795
Eco91I GGTNACC 1 cut(s) 939
EcoO109I RGGNCCY 1 cut(s) 89
EcoO65I GGTNACC 1 cut(s) 939
EcoRI GAATTC 1 cut(s) 1089
EcoRII CCWGG 6 cut(s) 85, 103, 409, 454, 855, 1111
EcoT14I CCWWGG 1 cut(s) 466
ErhI CCWWGG 1 cut(s) 466
FaeI CATG 7 cut(s) 206, 251, 274, 364, 636, 840, 899
FaqI GGGAC 1 cut(s) 501
FatI CATG 7 cut(s) 202, 247, 270, 360, 632, 836, 895
Fnu4HI GCNGC 1 cut(s) 57
FokI GGATG 3 cut(s) 53, 855, 1001
Fsp4HI GCNGC 1 cut(s) 57
FspBI CTAG 4 cut(s) 467, 509, 719, 1122
GluI GCNGC 1 cut(s) 57
HaeIII GGCC 2 cut(s) 26, 90
HapII CCGG 1 cut(s) 986
Hin1II CATG 7 cut(s) 206, 251, 274, 364, 636, 840, 899
HincII GTYRAC 1 cut(s) 1084
HindII GTYRAC 1 cut(s) 1084
HinfI GANTC 1 cut(s) 451
HpaII CCGG 1 cut(s) 986
HphI GGTGA 2 cut(s) 251, 969
Hpy166II GTNNAC 2 cut(s) 965, 1084
Hpy188I TCNGA 2 cut(s) 627, 811
Hpy188III TCNNGA 5 cut(s) 182, 248, 446, 534, 689
Hpy8I GTNNAC 2 cut(s) 965, 1084
HpyAV CCTTC 6 cut(s) 230, 336, 627, 665, 704, 922
HpyCH4III ACNGT 4 cut(s) 290, 586, 756, 908
HpyCH4IV ACGT 1 cut(s) 442
HpyCH4V TGCA 2 cut(s) 56, 657
HpyF10VI GCNNNNNNNGC 5 cut(s) 80, 96, 206, 719, 728
HpyF3I CTNAG 3 cut(s) 495, 663, 795
HpySE526I ACGT 1 cut(s) 442
Hsp92II CATG 7 cut(s) 206, 251, 274, 364, 636, 840, 899
Kzo9I GATC 4 cut(s) 348, 491, 931, 981
LmnI GCTCC 1 cut(s) 71
Lsp1109I GCAGC 1 cut(s) 68
LweI GCATC 3 cut(s) 43, 835, 982
MaeI CTAG 4 cut(s) 467, 509, 719, 1122
MaeII ACGT 1 cut(s) 442
MaeIII GTNAC 5 cut(s) 148, 370, 645, 874, 939
MalI GATC 4 cut(s) 350, 493, 933, 983
MboI GATC 4 cut(s) 348, 491, 931, 981
MboII GAAGA 1 cut(s) 592
MfeI CAATTG 2 cut(s) 1074, 1104
MhlI GDGCHC 1 cut(s) 591
MluCI AATT 9 cut(s) 251, 528, 919, 1017, 1042, 1053, 1074, 1089, 1104
MnlI CCTC 6 cut(s) 428, 661, 668, 816, 863, 957
MroXI GAANNNNTTC 1 cut(s) 1093
MseI TTAA 5 cut(s) 48, 174, 398, 705, 1016
MslI CAYNNNNRTG 1 cut(s) 841
MspI CCGG 1 cut(s) 986
MspR9I CCNGG 7 cut(s) 87, 105, 411, 456, 857, 986, 1113
MunI CAATTG 2 cut(s) 1074, 1104
MvaI CCWGG 6 cut(s) 87, 105, 411, 456, 857, 1113
MwoI GCNNNNNNNGC 5 cut(s) 80, 96, 206, 719, 728
NciI CCSGG 1 cut(s) 986
NdeII GATC 4 cut(s) 348, 491, 931, 981
NlaIII CATG 7 cut(s) 206, 251, 274, 364, 636, 840, 899
NlaIV GGNNCC 2 cut(s) 27, 91
NmuCI GTSAC 3 cut(s) 148, 370, 874
NspI RCATGY 2 cut(s) 636, 899
PagI TCATGA 1 cut(s) 247
PcsI WCGNNNNNNNCGW 1 cut(s) 439
PdmI GAANNNNTTC 1 cut(s) 1093
PfeI GAWTC 1 cut(s) 451
PfoI TCCNGGA 4 cut(s) 409, 454, 855, 984
PkrI GCNGC 1 cut(s) 58
PsiI TTATAA 1 cut(s) 117
Psp6I CCWGG 6 cut(s) 85, 103, 409, 454, 855, 1111
PspEI GGTNACC 1 cut(s) 939
PspGI CCWGG 6 cut(s) 85, 103, 409, 454, 855, 1111
PspN4I GGNNCC 2 cut(s) 27, 91
PspPI GGNCC 3 cut(s) 25, 89, 1109
PsrI GAACNNNNNNTAC 2 cut(s) 266, 298
RsaI GTAC 1 cut(s) 464
RsaNI GTAC 1 cut(s) 463
RseI CAYNNNNRTG 1 cut(s) 841
SaqAI TTAA 5 cut(s) 48, 174, 398, 705, 1016
SatI GCNGC 1 cut(s) 57
Sau3AI GATC 4 cut(s) 348, 491, 931, 981
Sau96I GGNCC 3 cut(s) 25, 89, 1109
ScrFI CCNGG 7 cut(s) 87, 105, 411, 456, 857, 986, 1113
SduI GDGCHC 1 cut(s) 591
SfaNI GCATC 3 cut(s) 43, 835, 982
SfcI CTRYAG 1 cut(s) 390
SinI GGWCC 1 cut(s) 1109
SmiMI CAYNNNNRTG 1 cut(s) 841
SmlI CTYRAG 2 cut(s) 501, 776
SmoI CTYRAG 2 cut(s) 501, 776
Sse9I AATT 9 cut(s) 251, 528, 919, 1017, 1042, 1053, 1074, 1089, 1104
SsiI CCGC 1 cut(s) 223
SspMI CTAG 4 cut(s) 467, 509, 719, 1122
StyD4I CCNGG 7 cut(s) 85, 103, 409, 454, 855, 984, 1111
StyI CCWWGG 1 cut(s) 466
TaaI ACNGT 4 cut(s) 290, 586, 756, 908
TaiI ACGT 1 cut(s) 445
TaqI TCGA 4 cut(s) 131, 267, 433, 688
TasI AATT 9 cut(s) 251, 528, 919, 1017, 1042, 1053, 1074, 1089, 1104
TfiI GAWTC 1 cut(s) 451
Tru1I TTAA 5 cut(s) 48, 174, 398, 705, 1016
Tru9I TTAA 5 cut(s) 48, 174, 398, 705, 1016
TscAI CASTG 4 cut(s) 606, 941, 1008, 1015
TseFI GTSAC 3 cut(s) 148, 370, 874
TseI GCWGC 1 cut(s) 56
Tsp45I GTSAC 3 cut(s) 148, 370, 874
TspDTI ATGAA 9 cut(s) 23, 57, 219, 236, 264, 287, 686, 825, 900
TspRI CASTG 4 cut(s) 606, 941, 1008, 1015
VpaK11BI GGWCC 1 cut(s) 1109
XapI RAATTY 4 cut(s) 528, 919, 1042, 1089
XceI RCATGY 2 cut(s) 636, 899
XcmI CCANNNNNNNNNTGG 1 cut(s) 759
XmaJI CCTAGG 1 cut(s) 466
XmnI GAANNNNTTC 1 cut(s) 1093
XspI CTAG 4 cut(s) 467, 509, 719, 1122
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.