Rroxscaffold_2G00142560

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000093
Physical Location & Seq
Reverse (-)
80616796 .. 80618314
1519 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00142560.1

Sequence Viewer

Length: 411 bp
ATGGGAAGAATTATTGATGGTTTTGCGGGTATCTCTCCAGCCATTTCTCCGCTAGCGGCTGAGCTCCTTGCAATCTGTGAAGGCTTGGTTCTTATTGCAAAGCTTCCTCCTTGTCCGGTCATTCTGGCATCGGATTCTATCACTCTTATTCAGGCTCTAAAGTCAGGCATCCCTCCTCAAGATTGGACTGTGACTAATTTATTCTCTAAAGCCCGGTACCTCTCTCGAAACCGGCAAATCAGCTGGATTTGGACCAGCAGGAAAGCAAATCGAGTAGCGGATCATGTTGCTGCTCTTGCTTATAGAGGAAAGTGTCCCCAAGATTGGGTTGTAAACCCTCCTTCCTCTCTGATTCGTGTGTTGTTGTATGATGGGCTCCCTTGCCCTCCTGTTGCTCCTGCGCATGGTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04144 map04144
Pfam Domains
Protein Families
RVT_3 zf-RVT

Protein Analysis

136

Amino Acids

14.66

Weight (kDa)

9.3

Isoelectric Point (pI)

40.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 2 - 99 2.5e-11 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)
Acc16I TGCGCA 1 cut(s) 402
Acc65I GGTACC 1 cut(s) 216
AccB1I GGYRCC 1 cut(s) 216
AciI CCGC 4 cut(s) 26, 50, 56, 278
AclWI GGATC 1 cut(s) 288
AfaI GTAC 1 cut(s) 218
AfiI CCNNNNNNNGG 3 cut(s) 324, 325, 404
AluBI AGCT 3 cut(s) 64, 103, 243
AluI AGCT 3 cut(s) 64, 103, 243
Alw21I GWGCWC 1 cut(s) 66
AlwI GGATC 1 cut(s) 288
ApeKI GCWGC 1 cut(s) 290
Asp718I GGTACC 1 cut(s) 216
AspLEI GCGC 1 cut(s) 403
AspS9I GGNCC 1 cut(s) 252
AsuC2I CCSGG 1 cut(s) 214
AsuNHI GCTAGC 1 cut(s) 52
AvaII GGWCC 1 cut(s) 252
BanI GGYRCC 1 cut(s) 216
BanII GRGCYC 2 cut(s) 66, 378
Bbv12I GWGCWC 1 cut(s) 66
BbvI GCAGC 1 cut(s) 277
BccI CCATC 2 cut(s) 11, 365
BcnI CCSGG 1 cut(s) 214
BfaI CTAG 1 cut(s) 53
BisI GCNGC 2 cut(s) 57, 291
BlpI GCTNAGC 1 cut(s) 60
BlsI GCNGC 2 cut(s) 58, 292
Bme1390I CCNGG 1 cut(s) 214
Bme18I GGWCC 1 cut(s) 252
BmgT120I GGNCC 1 cut(s) 252
BmiI GGNNCC 2 cut(s) 218, 377
BmrFI CCNGG 1 cut(s) 214
BmsI GCATC 2 cut(s) 137, 177
BmtI GCTAGC 1 cut(s) 56
BpmI CTGGAG 1 cut(s) 21
Bpu1102I GCTNAGC 1 cut(s) 60
BpuEI CTTGAG 1 cut(s) 162
BpuMI CCSGG 1 cut(s) 214
BsaWI WCCGGW 1 cut(s) 115
Bsc4I CCNNNNNNNGG 3 cut(s) 324, 325, 404
Bse118I RCCGGY 1 cut(s) 231
BseGI GGATG 1 cut(s) 168
BseLI CCNNNNNNNGG 3 cut(s) 324, 325, 404
BseMII CTCAG 1 cut(s) 51
BseRI GAGGAG 1 cut(s) 165
BseXI GCAGC 1 cut(s) 277
BshNI GGYRCC 1 cut(s) 216
BsiHKAI GWGCWC 1 cut(s) 66
BsiSI CCGG 3 cut(s) 116, 214, 232
BslFI GGGAC 1 cut(s) 300
BslI CCNNNNNNNGG 3 cut(s) 324, 325, 404
BsmFI GGGAC 1 cut(s) 300
Bsp1286I GDGCHC 2 cut(s) 66, 378
Bsp143I GATC 1 cut(s) 280
Bsp1720I GCTNAGC 1 cut(s) 60
BspACI CCGC 4 cut(s) 26, 50, 56, 278
BspCNI CTCAG 1 cut(s) 52
BspLI GGNNCC 2 cut(s) 218, 377
BspOI GCTAGC 1 cut(s) 56
BspPI GGATC 1 cut(s) 288
BspT107I GGYRCC 1 cut(s) 216
BsrFI RCCGGY 1 cut(s) 231
BssAI RCCGGY 1 cut(s) 231
BssMI GATC 1 cut(s) 280
Bst4CI ACNGT 1 cut(s) 190
BstC8I GCNNGC 1 cut(s) 54
BstDEI CTNAG 1 cut(s) 60
BstF5I GGATG 1 cut(s) 168
BstHHI GCGC 1 cut(s) 403
BstKTI GATC 1 cut(s) 283
BstMBI GATC 1 cut(s) 280
BstMWI GCNNNNNNNGC 1 cut(s) 296
BstSCI CCNGG 1 cut(s) 212
BstV1I GCAGC 1 cut(s) 277
BtsCI GGATG 1 cut(s) 168
Cac8I GCNNGC 1 cut(s) 54
CfoI GCGC 1 cut(s) 403
Cfr10I RCCGGY 1 cut(s) 231
Cfr13I GGNCC 1 cut(s) 252
Csp6I GTAC 1 cut(s) 217
CviAII CATG 2 cut(s) 284, 404
CviJI RGCY 9 cut(s) 41, 59, 64, 84, 103, 155, 212, 243, 376
CviKI_1 RGCY 9 cut(s) 41, 59, 64, 84, 103, 155, 212, 243, 376
CviQI GTAC 1 cut(s) 217
DdeI CTNAG 1 cut(s) 60
DpnI GATC 1 cut(s) 282
DpnII GATC 1 cut(s) 280
Ecl136II GAGCTC 1 cut(s) 64
Eco24I GRGCYC 2 cut(s) 66, 378
Eco47I GGWCC 1 cut(s) 252
Eco53kI GAGCTC 1 cut(s) 64
EcoICRI GAGCTC 1 cut(s) 64
EcoT38I GRGCYC 2 cut(s) 66, 378
FaeI CATG 2 cut(s) 287, 407
FaiI YATR 4 cut(s) 285, 303, 369, 405
FaqI GGGAC 1 cut(s) 300
FatI CATG 2 cut(s) 283, 403
FauI CCCGC 1 cut(s) 19
Fnu4HI GCNGC 2 cut(s) 57, 291
FokI GGATG 1 cut(s) 155
FriOI GRGCYC 2 cut(s) 66, 378
Fsp4HI GCNGC 2 cut(s) 57, 291
FspBI CTAG 1 cut(s) 53
FspI TGCGCA 1 cut(s) 402
GlaI GCGC 1 cut(s) 402
GluI GCNGC 2 cut(s) 57, 291
GsuI CTGGAG 1 cut(s) 21
HapII CCGG 3 cut(s) 116, 214, 232
HhaI GCGC 1 cut(s) 403
Hin1II CATG 2 cut(s) 287, 407
Hin6I GCGC 1 cut(s) 401
HinP1I GCGC 1 cut(s) 401
HindIII AAGCTT 1 cut(s) 101
HinfI GANTC 2 cut(s) 134, 352
HpaII CCGG 3 cut(s) 116, 214, 232
Hpy166II GTNNAC 1 cut(s) 334
Hpy188I TCNGA 2 cut(s) 133, 351
Hpy188III TCNNGA 2 cut(s) 179, 225
Hpy8I GTNNAC 1 cut(s) 334
HpyAV CCTTC 2 cut(s) 74, 351
HpyCH4III ACNGT 1 cut(s) 190
HpyCH4V TGCA 2 cut(s) 71, 98
HpyF10VI GCNNNNNNNGC 1 cut(s) 296
HpyF3I CTNAG 1 cut(s) 60
Hsp92II CATG 2 cut(s) 287, 407
HspAI GCGC 1 cut(s) 401
KpnI GGTACC 1 cut(s) 220
Kzo9I GATC 1 cut(s) 280
LmnI GCTCC 3 cut(s) 69, 381, 400
Lsp1109I GCAGC 1 cut(s) 277
LweI GCATC 2 cut(s) 137, 177
MaeI CTAG 1 cut(s) 53
MaeIII GTNAC 1 cut(s) 190
MalI GATC 1 cut(s) 282
MboI GATC 1 cut(s) 280
MboII GAAGA 1 cut(s) 18
MhlI GDGCHC 2 cut(s) 66, 378
MluCI AATT 2 cut(s) 9, 196
MnlI CCTC 8 cut(s) 117, 183, 186, 230, 299, 348, 355, 396
MspA1I CMGCKG 1 cut(s) 243
MspI CCGG 3 cut(s) 116, 214, 232
MspR9I CCNGG 1 cut(s) 214
MwoI GCNNNNNNNGC 1 cut(s) 296
NciI CCSGG 1 cut(s) 214
NdeII GATC 1 cut(s) 280
NheI GCTAGC 1 cut(s) 52
NlaIII CATG 2 cut(s) 287, 407
NlaIV GGNNCC 2 cut(s) 218, 377
NmuCI GTSAC 1 cut(s) 190
NsbI TGCGCA 1 cut(s) 402
PfeI GAWTC 2 cut(s) 134, 352
PkrI GCNGC 2 cut(s) 58, 292
Psp124BI GAGCTC 1 cut(s) 66
PspN4I GGNNCC 2 cut(s) 218, 377
PspPI GGNCC 1 cut(s) 252
PvuII CAGCTG 1 cut(s) 243
RsaI GTAC 1 cut(s) 218
RsaNI GTAC 1 cut(s) 217
SacI GAGCTC 1 cut(s) 66
SatI GCNGC 2 cut(s) 57, 291
Sau3AI GATC 1 cut(s) 280
Sau96I GGNCC 1 cut(s) 252
ScrFI CCNGG 1 cut(s) 214
SduI GDGCHC 2 cut(s) 66, 378
SetI ASST 4 cut(s) 66, 105, 222, 245
SfaNI GCATC 2 cut(s) 137, 177
SinI GGWCC 1 cut(s) 252
SmlI CTYRAG 1 cut(s) 177
SmoI CTYRAG 1 cut(s) 177
Sse9I AATT 2 cut(s) 9, 196
SsiI CCGC 4 cut(s) 26, 50, 56, 278
SspMI CTAG 1 cut(s) 53
SstI GAGCTC 1 cut(s) 66
StyD4I CCNGG 1 cut(s) 212
TaaI ACNGT 1 cut(s) 190
TaqI TCGA 2 cut(s) 226, 271
TasI AATT 2 cut(s) 9, 196
TauI GCSGC 1 cut(s) 59
TfiI GAWTC 2 cut(s) 134, 352
TseFI GTSAC 1 cut(s) 190
TseI GCWGC 1 cut(s) 290
Tsp45I GTSAC 1 cut(s) 190
VpaK11BI GGWCC 1 cut(s) 252
XspI CTAG 1 cut(s) 53
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.