Rroxscaffold_4G00305680

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000093
Physical Location & Seq
Reverse (-)
26327494 .. 26328601
1108 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00305680.1

Sequence Viewer

Length: 312 bp
ATGGTTCTTGACTTCGGTGTGAGACTTGCAGATGAGTTTTTAACTGCGATTACTCCCACCCCGGCTCTCTCTTCTAATTTCATCACAAAATGGGAACCTCCCCATCCGGAGTTGGTGATCGTTAACCGTGATGCGGCCCGGGTCGATCCATCAATTGGAGGCTTAGGTGTTGTGATTCGTGATCATAATGGCATAATGATTGCGGGTGGATCGAAGCAATCATGTCACGGATCGGTTGAAGCAGCTGAAGCTAGTGCAATTCTCCGGGAGTCGAACCGGCAATTGAACATAATCGCAAAATGTTCGAATTGA
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

103

Amino Acids

10.98

Weight (kDa)

5.84

Isoelectric Point (pI)

41.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 45 - 89 6.8e-06 Reverse transcriptase-like
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: OG0000093)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G09490
fragaria_vesca FvH4_1g23791 FvH4_2g01641 FvH4_2g04612 FvH4_2g06831 FvH4_2g07841 FvH4_2g13581 FvH4_2g27220 FvH4_2g30621 FvH4_2g34753 FvH4_3g10392 FvH4_3g24291 FvH4_3g25030 FvH4_3g29361 FvH4_3g31372 FvH4_3g32402 FvH4_3g43651 FvH4_4g03830 FvH4_4g05481 FvH4_4g20431 FvH4_4g21421 FvH4_4g25931 FvH4_5g08801 FvH4_5g21021 FvH4_5g26254 FvH4_5g30931 FvH4_5g31281 FvH4_5g33581 FvH4_5g35622 FvH4_6g02100 FvH4_6g07963 FvH4_6g11620 FvH4_6g16031 FvH4_6g19041 FvH4_6g24211 FvH4_6g24271 FvH4_6g30670 FvH4_6g49540 FvH4_7g25914
malus_domestica MD03G1245200.v1.1 MD04G1168000.v1.1 MD09G1242600.v1.1 MD15G1334000.v1.1 MD17G1165700.v1.1
prunus_persica Prupe.1G073500_v2.0.a1 Prupe.1G283700_v2.0.a1 Prupe.1G524100_v2.0.a1 Prupe.2G022700_v2.0.a1 Prupe.2G022800_v2.0.a1 Prupe.2G022800_v2.0.a1 Prupe.2G044300_v2.0.a1 Prupe.2G048800_v2.0.a1 Prupe.2G092000_v2.0.a1 Prupe.2G216500_v2.0.a1 Prupe.2G216600_v2.0.a1 Prupe.2G216600_v2.0.a1 Prupe.3G103400_v2.0.a1 Prupe.3G143300_v2.0.a1 Prupe.3G190000_v2.0.a1 Prupe.3G219800_v2.0.a1 Prupe.4G177800_v2.0.a1 Prupe.4G261300_v2.0.a1 Prupe.5G044600_v2.0.a1 Prupe.5G067400_v2.0.a1 Prupe.7G083900_v2.0.a1 Prupe.7G120900_v2.0.a1 Prupe.8G032200_v2.0.a1 Prupe.8G036100_v2.0.a1 Prupe.8G042700_v2.0.a1
pyrus_communis pycom01g21710 pycom02g19770 pycom03g05120 pycom05g01370 pycom05g08780 pycom05g10120 pycom07g01370 pycom07g05930 pycom08g15760 pycom08g18090 pycom08g21060 pycom09g03880 pycom10g03870 pycom13g22240 pycom16g05120 pycom16g17170 pycom17g12180 pycom17g16290 pycom17g21230 pycom17g24990 pycom215g00100
rosa_chinensis RchiOBHm_Chr1g0323031 RchiOBHm_Chr1g0324391 RchiOBHm_Chr1g0326401 RchiOBHm_Chr1g0327811 RchiOBHm_Chr1g0332521 RchiOBHm_Chr1g0336501 RchiOBHm_Chr1g0346021 RchiOBHm_Chr1g0347191 RchiOBHm_Chr1g0367181 RchiOBHm_Chr2g0089441 RchiOBHm_Chr2g0115441 RchiOBHm_Chr3g0490691 RchiOBHm_Chr4g0395251 RchiOBHm_Chr4g0398081 RchiOBHm_Chr4g0409451 RchiOBHm_Chr4g0413041 RchiOBHm_Chr4g0415471 RchiOBHm_Chr4g0420961 RchiOBHm_Chr5g0040301 RchiOBHm_Chr5g0070651 RchiOBHm_Chr6g0263011 RchiOBHm_Chr6g0270721 RchiOBHm_Chr6g0277111 RchiOBHm_Chr7g0179771 RchiOBHm_Chr7g0223051 RchiOBHm_Chr7g0225031 RchiOBHm_Chr7g0225091
rosa_laevigata RLG00000001668 RLG00000001672 RLG00000001676 RLG00000007762 RLG00000008994 RLG00000011117 RLG00000013729 RLG00000013839 RLG00000014759 RLG00000016638 RLG00000018535 RLG00000018614 RLG00000018646 RLG00000020679 RLG00000023337 RLG00000029348 RLG00000035891 RLG00000035912
rosa_multiflora Rmu_co8152500.1_g000001 Rmu_co8203314.1_g000001 Rmu_co8383183.1_g000001 Rmu_sc0000293.1_g000033 Rmu_sc0000367.1_g000226 Rmu_sc0000512.1_g000023 Rmu_sc0000594.1_g000059 Rmu_sc0000654.1_g000022 Rmu_sc0000654.1_g000047 Rmu_sc0000706.1_g000037 Rmu_sc0001348.1_g000008 Rmu_sc0001385.1_g000024 Rmu_sc0001405.1_g000002 Rmu_sc0001521.1_g000048 Rmu_sc0001932.1_g000008 Rmu_sc0001932.1_g000009 Rmu_sc0002535.1_g000011 Rmu_sc0002908.1_g000019 Rmu_sc0003709.1_g000004 Rmu_sc0003882.1_g000054 Rmu_sc0004035.1_g000007 Rmu_sc0004041.1_g000007 Rmu_sc0004288.1_g000011 Rmu_sc0004569.1_g000004 Rmu_sc0004677.1_g000016 Rmu_sc0004834.1_g000010 Rmu_sc0005193.1_g000008 Rmu_sc0005354.1_g000009 Rmu_sc0006514.1_g000021 Rmu_sc0006691.1_g000001 Rmu_sc0006888.1_g000021 Rmu_sc0006889.1_g000013 Rmu_sc0008096.1_g000017 Rmu_sc0008378.1_g000003 Rmu_sc0009127.1_g000005 Rmu_sc0009191.1_g000016 Rmu_sc0009687.1_g000018 Rmu_sc0009709.1_g000005 Rmu_sc0009880.1_g000015 Rmu_sc0011710.1_g000001 Rmu_sc0012615.1_g000004 Rmu_sc0016091.1_g000002 Rmu_sc0022339.1_g000006 Rmu_sc0026537.1_g000002 Rmu_sc0027689.1_g000002 Rmu_sc0036222.1_g000001 Rmu_sc0040890.1_g000001 Rmu_ssc0000148.1_g000006 Rmu_ssc0000151.1_g000017 Rmu_ssc0000404.1_g000018 Rmu_ssc0000449.1_g000009
rosa_roxburghii Rroxscaffold_1G00017760 Rroxscaffold_1G00059150 Rroxscaffold_2G00142560 Rroxscaffold_3G00220440 Rroxscaffold_3G00231700 Rroxscaffold_3G00232400 Rroxscaffold_3G00274510 Rroxscaffold_4G00288790 Rroxscaffold_4G00305680 Rroxscaffold_4G00314880 Rroxscaffold_4G00314900 Rroxscaffold_5G00334590 Rroxscaffold_6G00394110 Rroxscaffold_6G00415860 Rroxscaffold_7G00168240 Rroxscaffold_7G00204400 Rroxscaffold_7G00207840
rosa_rugosa Rorug01G0034900 Rorug02G0079500 Rorug02G0229000 Rorug02G0229100 Rorug02G0291400 Rorug02G0298800 Rorug03G0046400 Rorug03G0064700 Rorug03G0077300 Rorug03G0199000 Rorug03G0200400 Rorug04G0205200 Rorug05G0025400 Rorug05G0127400 Rorug05G0192100 Rorug05G0453400 Rorug05G0538300 Rorug06G0035200 Rorug06G0241000 Rorug06G0268300 Rorug07G0120300 Rorug07G0145000 Rorug07G0209100 Rorug07G0240500 Rorug07G0271700
rosa_samantha Rh1AG179100 Rh1BG106900 Rh1BG163400 Rh1BG163500 Rh1BG323500 Rh2CG447900 Rh2DG503700 Rh3AG293600 Rh3CG229100 Rh3DG221500 Rh4AG106000 Rh4BG267700 Rh4CG062500 Rh4CG090100 Rh4CG114800 Rh5AG038400 Rh5BG395400 Rh5CG441700 Rh5CG572000 Rh6AG222400 Rh6AG264500 Rh6BG137400 Rh6BG225700 Rh6CG144300 Rh6DG087600 Rh6DG096000 Rh6DG362400 Rh6DG390200 Rh7AG207500 Rh7AG324700 Rh7AG388800 Rh7AG437100 Rh7BG019000 Rh7BG374600 Rh7CG028700 Rh7CG341500 Rh7CG408000 Rh7CG408300 Rh7DG354600
rosa_wichuraiana Rw0G009630 Rw0G012170 Rw4G022700 Rw5G028420 Rw5G029490 Rw6G007220 Rw6G007410 Rw6G017880 Rw7G012440 Rw7G021830 Rw7G027490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 155
AccIII TCCGGA 1 cut(s) 106
AciI CCGC 2 cut(s) 134, 203
AclWI GGATC 3 cut(s) 140, 217, 238
AcuI CTGAAG 1 cut(s) 267
AfiI CCNNNNNNNGG 2 cut(s) 133, 155
AgsI TTSAA 2 cut(s) 239, 286
AluBI AGCT 2 cut(s) 245, 251
AluI AGCT 2 cut(s) 245, 251
Alw26I GTCTC 1 cut(s) 16
AlwI GGATC 3 cut(s) 140, 217, 238
Ama87I CYCGRG 1 cut(s) 138
Aor13HI TCCGGA 1 cut(s) 106
AoxI GGCC 1 cut(s) 135
ApeKI GCWGC 1 cut(s) 242
AspS9I GGNCC 1 cut(s) 136
AsuC2I CCSGG 4 cut(s) 62, 139, 140, 266
AsuHPI GGTGA 1 cut(s) 127
AsuII TTCGAA 1 cut(s) 305
AvaI CYCGRG 1 cut(s) 138
BbvI GCAGC 1 cut(s) 254
BccI CCATC 2 cut(s) 111, 157
BcgI CGANNNNNNTGC 1 cut(s) 285
BclI TGATCA 1 cut(s) 181
BcnI CCSGG 4 cut(s) 62, 139, 140, 266
BcoDI GTCTC 1 cut(s) 16
BfaI CTAG 1 cut(s) 252
BisI GCNGC 2 cut(s) 135, 243
BlsI GCNGC 2 cut(s) 136, 244
Bme1390I CCNGG 4 cut(s) 62, 139, 140, 266
BmeT110I CYCGRG 1 cut(s) 138
BmgT120I GGNCC 1 cut(s) 136
BmiI GGNNCC 1 cut(s) 96
BmrFI CCNGG 4 cut(s) 62, 139, 140, 266
BmsI GCATC 1 cut(s) 121
Bpu10I CCTNAGC 1 cut(s) 163
Bpu14I TTCGAA 1 cut(s) 305
BpuMI CCSGG 4 cut(s) 62, 139, 140, 266
BsaJI CCNNGG 2 cut(s) 60, 138
BsaWI WCCGGW 1 cut(s) 106
Bsc4I CCNNNNNNNGG 2 cut(s) 133, 155
Bse118I RCCGGY 1 cut(s) 276
BseAI TCCGGA 1 cut(s) 106
BseDI CCNNGG 2 cut(s) 60, 138
BseGI GGATG 1 cut(s) 103
BseLI CCNNNNNNNGG 2 cut(s) 133, 155
BseXI GCAGC 1 cut(s) 254
BshFI GGCC 1 cut(s) 137
BsiHKCI CYCGRG 1 cut(s) 138
BsiSI CCGG 5 cut(s) 62, 107, 139, 265, 277
BslI CCNNNNNNNGG 2 cut(s) 133, 155
BsmAI GTCTC 1 cut(s) 16
BsnI GGCC 1 cut(s) 137
BsoBI CYCGRG 1 cut(s) 138
Bsp119I TTCGAA 1 cut(s) 305
Bsp13I TCCGGA 1 cut(s) 106
Bsp143I GATC 5 cut(s) 117, 145, 181, 209, 230
BspACI CCGC 2 cut(s) 134, 203
BspANI GGCC 1 cut(s) 137
BspEI TCCGGA 1 cut(s) 106
BspLI GGNNCC 1 cut(s) 96
BspPI GGATC 3 cut(s) 140, 217, 238
BspT104I TTCGAA 1 cut(s) 305
BsrFI RCCGGY 1 cut(s) 276
BssAI RCCGGY 1 cut(s) 276
BssECI CCNNGG 2 cut(s) 60, 138
BssMI GATC 5 cut(s) 117, 145, 181, 209, 230
Bst4CI ACNGT 1 cut(s) 128
Bst6I CTCTTC 1 cut(s) 76
BstBI TTCGAA 1 cut(s) 305
BstDEI CTNAG 1 cut(s) 163
BstF5I GGATG 1 cut(s) 103
BstKTI GATC 5 cut(s) 120, 148, 184, 212, 233
BstMAI GTCTC 1 cut(s) 16
BstMBI GATC 5 cut(s) 117, 145, 181, 209, 230
BstMWI GCNNNNNNNGC 1 cut(s) 248
BstSCI CCNGG 4 cut(s) 60, 137, 138, 264
BstV1I GCAGC 1 cut(s) 254
BsuRI GGCC 1 cut(s) 137
BtsCI GGATG 1 cut(s) 103
Cfr10I RCCGGY 1 cut(s) 276
Cfr13I GGNCC 1 cut(s) 136
Cfr9I CCCGGG 1 cut(s) 138
CviAII CATG 1 cut(s) 222
CviJI RGCY 5 cut(s) 65, 137, 162, 245, 251
CviKI_1 RGCY 5 cut(s) 65, 137, 162, 245, 251
DdeI CTNAG 1 cut(s) 163
DpnI GATC 5 cut(s) 119, 147, 183, 211, 232
DpnII GATC 5 cut(s) 117, 145, 181, 209, 230
Eam1104I CTCTTC 1 cut(s) 76
EarI CTCTTC 1 cut(s) 76
Eco57I CTGAAG 1 cut(s) 267
Eco88I CYCGRG 1 cut(s) 138
FaeI CATG 1 cut(s) 225
FaiI YATR 4 cut(s) 186, 194, 223, 290
FatI CATG 1 cut(s) 221
FauI CCCGC 1 cut(s) 196
FbaI TGATCA 1 cut(s) 181
Fnu4HI GCNGC 2 cut(s) 135, 243
FokI GGATG 1 cut(s) 90
Fsp4HI GCNGC 2 cut(s) 135, 243
FspBI CTAG 1 cut(s) 252
GluI GCNGC 2 cut(s) 135, 243
HaeIII GGCC 1 cut(s) 137
HapII CCGG 5 cut(s) 62, 107, 139, 265, 277
Hin1II CATG 1 cut(s) 225
HincII GTYRAC 1 cut(s) 124
HindII GTYRAC 1 cut(s) 124
HinfI GANTC 2 cut(s) 175, 269
HpaI GTTAAC 1 cut(s) 124
HpaII CCGG 5 cut(s) 62, 107, 139, 265, 277
HphI GGTGA 1 cut(s) 127
Hpy166II GTNNAC 1 cut(s) 124
Hpy188III TCNNGA 3 cut(s) 8, 107, 179
Hpy8I GTNNAC 1 cut(s) 124
HpyCH4III ACNGT 1 cut(s) 128
HpyCH4V TGCA 2 cut(s) 29, 257
HpyF10VI GCNNNNNNNGC 1 cut(s) 248
HpyF3I CTNAG 1 cut(s) 163
Hsp92II CATG 1 cut(s) 225
Kpn2I TCCGGA 1 cut(s) 106
Ksp22I TGATCA 1 cut(s) 181
KspAI GTTAAC 1 cut(s) 124
Kzo9I GATC 5 cut(s) 117, 145, 181, 209, 230
LpnPI CCDG 5 cut(s) 75, 120, 152, 278, 290
Lsp1109I GCAGC 1 cut(s) 254
LweI GCATC 1 cut(s) 121
MaeI CTAG 1 cut(s) 252
MaeIII GTNAC 1 cut(s) 224
MalI GATC 5 cut(s) 119, 147, 183, 211, 232
MboI GATC 5 cut(s) 117, 145, 181, 209, 230
MboII GAAGA 1 cut(s) 63
MfeI CAATTG 2 cut(s) 153, 281
MluCI AATT 5 cut(s) 76, 153, 258, 281, 307
MlyI GAGTC 1 cut(s) 278
MnlI CCTC 2 cut(s) 108, 152
MroI TCCGGA 1 cut(s) 106
MseI TTAA 2 cut(s) 41, 123
MspA1I CMGCKG 1 cut(s) 245
MspI CCGG 5 cut(s) 62, 107, 139, 265, 277
MspR9I CCNGG 4 cut(s) 62, 139, 140, 266
MunI CAATTG 2 cut(s) 153, 281
MwoI GCNNNNNNNGC 1 cut(s) 248
NciI CCSGG 4 cut(s) 62, 139, 140, 266
NdeII GATC 5 cut(s) 117, 145, 181, 209, 230
NlaIII CATG 1 cut(s) 225
NlaIV GGNNCC 1 cut(s) 96
NmuCI GTSAC 1 cut(s) 224
NspV TTCGAA 1 cut(s) 305
PfeI GAWTC 1 cut(s) 175
PflMI CCANNNNNTGG 1 cut(s) 155
PfoI TCCNGGA 1 cut(s) 264
PkrI GCNGC 2 cut(s) 136, 244
PleI GAGTC 1 cut(s) 277
PpsI GAGTC 1 cut(s) 277
PspN4I GGNNCC 1 cut(s) 96
PspPI GGNCC 1 cut(s) 136
PvuII CAGCTG 1 cut(s) 245
SaqAI TTAA 2 cut(s) 41, 123
SatI GCNGC 2 cut(s) 135, 243
Sau3AI GATC 5 cut(s) 117, 145, 181, 209, 230
Sau96I GGNCC 1 cut(s) 136
SchI GAGTC 1 cut(s) 278
ScrFI CCNGG 4 cut(s) 62, 139, 140, 266
SetI ASST 4 cut(s) 100, 169, 247, 253
SfaNI GCATC 1 cut(s) 121
SfuI TTCGAA 1 cut(s) 305
SmaI CCCGGG 1 cut(s) 140
Sse9I AATT 5 cut(s) 76, 153, 258, 281, 307
SsiI CCGC 2 cut(s) 134, 203
SspMI CTAG 1 cut(s) 252
StyD4I CCNGG 4 cut(s) 60, 137, 138, 264
TaaI ACNGT 1 cut(s) 128
TaqI TCGA 4 cut(s) 144, 212, 272, 305
TasI AATT 5 cut(s) 76, 153, 258, 281, 307
TauI GCSGC 1 cut(s) 137
TfiI GAWTC 1 cut(s) 175
Tru1I TTAA 2 cut(s) 41, 123
Tru9I TTAA 2 cut(s) 41, 123
TseFI GTSAC 1 cut(s) 224
TseI GCWGC 1 cut(s) 242
Tsp45I GTSAC 1 cut(s) 224
TspDTI ATGAA 1 cut(s) 70
TspGWI ACGGA 1 cut(s) 243
TspMI CCCGGG 1 cut(s) 138
Van91I CCANNNNNTGG 1 cut(s) 155
XmaI CCCGGG 1 cut(s) 138
XspI CTAG 1 cut(s) 252
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.