RLG00000011117

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0000093
Physical Location & Seq
Forward (+)
6924856 .. 6928311
3456 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000011117

Sequence Viewer

Length: 891 bp
ATGTCTTGCTCTCCTATGGATTCTAAAGCTCCTAAACTGTTCAAATTTGAGGAAGGCTGGAAACGTGACCCTGAGTGTTTTGAAGTGGTAAATCGTAATTGGAAGAAAAAAGTTAGCGGCAGCTCTCAACTTCAGTGGAAAAAGAAACTTAGCTATTGCAAGATCATAAGGAAACAGTTGAGCACATGGACCATAGGAGTGTGGTTTGGTTTGCCTCTTTATTACAAGGTGGATCTAGCAGCGATTACTACTTTTGATGCTTGGTTTTCTGGTGTTTGTGAGATGATGAAGATCATCTGGAAGGAAAGATGTGCAGCTGTTTATGATCGTAGAGAGCCAACTCCTTGGGGGGTACTTGCTCAAATCAAAGCTGCAGTTTCAGAGTTTTGTGGACTGATTGTCTCTGGTTCATCAACTCTTAATTGTGATGGGGCTTGGAATTCTGAAACCAAAGAAGCTGGGATTGGATGCATTATCAGAGATTTTACTGGTAAAATTATTAGTGGGAGAGTTAAAACCTGTTTGGCAAACTCTGCTTTGCATGCAGAAGCTACTGCTCTCTTAGAGGGATTGATTTCAGCTAGAAATCTGGATTTTCCTTCAGTAAGTGTTGAAATGGATTCTGAACGGTTGTTTTCTGCAATTGTTTTGAAGCCTTACACCAACTTGTGGCATATCTACCCTCTTTTGAAAGACATTAGGAAGATTAAGCTTGAAAAACCTTTGTGGAGTTGGAGTCTGGTCAACAGAAAATGTAACGCTGCGGCGGATTGGCTTGCACAGCGAGCTAAAATGGGGGTGGATTTGGGGGATTGGATCGATCAACCTCTACTTTCATTGATGAATGTTCTCAAAACTGATGGTCTGCCAGCTCCTCCTTCGTGGGATTAA
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

297

Amino Acids

33.43

Weight (kDa)

9.0

Isoelectric Point (pI)

33.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 141 - 263 1.8e-20 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) 669
AciI CCGC 3 cut(s) 117, 764, 767
AclWI GGATC 2 cut(s) 240, 824
AcsI RAATTY 2 cut(s) 44, 439
AcuI CTGAAG 2 cut(s) 116, 585
AfaI GTAC 1 cut(s) 354
AfiI CCNNNNNNNGG 1 cut(s) 669
AgsI TTSAA 6 cut(s) 43, 83, 614, 652, 691, 716
AhdI GACNNNNNGTC 1 cut(s) 398
AjuI GAANNNNNNNTTGG 2 cut(s) 447, 479
Alw21I GWGCWC 1 cut(s) 185
Alw26I GTCTC 1 cut(s) 406
AlwI GGATC 2 cut(s) 240, 824
ApeKI GCWGC 5 cut(s) 120, 239, 314, 371, 761
ApoI RAATTY 2 cut(s) 44, 439
AspS9I GGNCC 1 cut(s) 189
AvaII GGWCC 1 cut(s) 189
Bbv12I GWGCWC 1 cut(s) 185
BbvI GCAGC 5 cut(s) 132, 251, 326, 358, 748
BccI CCATC 2 cut(s) 422, 854
BcoDI GTCTC 1 cut(s) 406
BfaI CTAG 2 cut(s) 236, 582
BfmI CTRYAG 1 cut(s) 372
BisI GCNGC 7 cut(s) 118, 121, 240, 315, 372, 762, 765
BlsI GCNGC 7 cut(s) 119, 122, 241, 316, 373, 763, 766
Bme18I GGWCC 1 cut(s) 189
BmeRI GACNNNNNGTC 1 cut(s) 398
BmgT120I GGNCC 1 cut(s) 189
BmsI GCATC 2 cut(s) 247, 458
Bsa29I ATCGAT 1 cut(s) 819
BsaBI GATNNNNATC 1 cut(s) 290
BsaJI CCNNGG 1 cut(s) 344
BsaXI ACNNNNNCTCC 2 cut(s) 721, 751
Bsc4I CCNNNNNNNGG 1 cut(s) 669
Bse1I ACTGG 1 cut(s) 493
Bse8I GATNNNNATC 1 cut(s) 290
BseCI ATCGAT 1 cut(s) 819
BseDI CCNNGG 1 cut(s) 344
BseGI GGATG 1 cut(s) 473
BseJI GATNNNNATC 1 cut(s) 290
BseLI CCNNNNNNNGG 1 cut(s) 669
BseMII CTCAG 1 cut(s) 63
BseNI ACTGG 1 cut(s) 493
BseRI GAGGAG 1 cut(s) 864
BseXI GCAGC 5 cut(s) 132, 251, 326, 358, 748
BseYI CCCAGC 1 cut(s) 458
BsgI GTGCAG 1 cut(s) 333
BshVI ATCGAT 1 cut(s) 819
BsiHKAI GWGCWC 1 cut(s) 185
BslI CCNNNNNNNGG 1 cut(s) 669
BsmAI GTCTC 1 cut(s) 406
Bsp1286I GDGCHC 1 cut(s) 185
Bsp143I GATC 6 cut(s) 162, 232, 291, 325, 816, 820
BspACI CCGC 3 cut(s) 117, 764, 767
BspCNI CTCAG 1 cut(s) 64
BspDI ATCGAT 1 cut(s) 819
BspMAI CTGCAG 1 cut(s) 376
BspPI GGATC 2 cut(s) 240, 824
BsrI ACTGG 1 cut(s) 493
BssECI CCNNGG 1 cut(s) 344
BssMI GATC 6 cut(s) 162, 232, 291, 325, 816, 820
BssT1I CCWWGG 1 cut(s) 344
Bst4CI ACNGT 3 cut(s) 39, 177, 630
BstAPI GCANNNNNTGC 1 cut(s) 533
BstC8I GCNNGC 4 cut(s) 543, 777, 786, 870
BstDEI CTNAG 3 cut(s) 72, 149, 562
BstF5I GGATG 1 cut(s) 473
BstKTI GATC 6 cut(s) 165, 235, 294, 328, 819, 823
BstMAI GTCTC 1 cut(s) 406
BstMBI GATC 6 cut(s) 162, 232, 291, 325, 816, 820
BstMWI GCNNNNNNNGC 4 cut(s) 533, 542, 781, 785
BstNSI RCATGY 1 cut(s) 545
BstSFI CTRYAG 1 cut(s) 372
BstV1I GCAGC 5 cut(s) 132, 251, 326, 358, 748
BstX2I RGATCY 1 cut(s) 232
BstXI CCANNNNNNTGG 1 cut(s) 345
BstYI RGATCY 1 cut(s) 232
Bsu15I ATCGAT 1 cut(s) 819
BsuTUI ATCGAT 1 cut(s) 819
BtsCI GGATG 1 cut(s) 473
BtsIMutI CAGTG 1 cut(s) 140
Cac8I GCNNGC 4 cut(s) 543, 777, 786, 870
Cfr13I GGNCC 1 cut(s) 189
ClaI ATCGAT 1 cut(s) 819
Csp6I GTAC 1 cut(s) 353
CspCI CAANNNNNGTGG 2 cut(s) 116, 151
CviAII CATG 2 cut(s) 186, 542
CviQI GTAC 1 cut(s) 353
DdeI CTNAG 3 cut(s) 72, 149, 562
DpnI GATC 6 cut(s) 164, 234, 293, 327, 818, 822
DpnII GATC 6 cut(s) 162, 232, 291, 325, 816, 820
DriI GACNNNNNGTC 1 cut(s) 398
Eam1105I GACNNNNNGTC 1 cut(s) 398
EciI GGCGGA 1 cut(s) 782
Eco130I CCWWGG 1 cut(s) 344
Eco47I GGWCC 1 cut(s) 189
Eco57I CTGAAG 2 cut(s) 116, 585
EcoRI GAATTC 1 cut(s) 439
EcoT14I CCWWGG 1 cut(s) 344
EcoT22I ATGCAT 1 cut(s) 473
ErhI CCWWGG 1 cut(s) 344
FaeI CATG 2 cut(s) 189, 545
FaiI YATR 7 cut(s) 17, 167, 187, 194, 324, 543, 675
FatI CATG 2 cut(s) 185, 541
Fnu4HI GCNGC 7 cut(s) 118, 121, 240, 315, 372, 762, 765
FokI GGATG 1 cut(s) 480
Fsp4HI GCNGC 7 cut(s) 118, 121, 240, 315, 372, 762, 765
FspBI CTAG 2 cut(s) 236, 582
GluI GCNGC 7 cut(s) 118, 121, 240, 315, 372, 762, 765
GsaI CCCAGC 1 cut(s) 462
Hin1II CATG 2 cut(s) 189, 545
HincII GTYRAC 1 cut(s) 745
HindII GTYRAC 1 cut(s) 745
HindIII AAGCTT 1 cut(s) 710
HinfI GANTC 3 cut(s) 20, 620, 736
Hpy166II GTNNAC 2 cut(s) 392, 745
Hpy188I TCNGA 4 cut(s) 382, 445, 479, 625
Hpy188III TCNNGA 2 cut(s) 298, 590
Hpy8I GTNNAC 2 cut(s) 392, 745
HpyAV CCTTC 4 cut(s) 47, 295, 609, 888
HpyCH4III ACNGT 3 cut(s) 39, 177, 630
HpyCH4IV ACGT 1 cut(s) 64
HpyCH4V TGCA 8 cut(s) 159, 314, 374, 471, 541, 545, 641, 779
HpyF10VI GCNNNNNNNGC 4 cut(s) 533, 542, 781, 785
HpyF3I CTNAG 3 cut(s) 72, 149, 562
HpySE526I ACGT 1 cut(s) 64
Hsp92II CATG 2 cut(s) 189, 545
Kzo9I GATC 6 cut(s) 162, 232, 291, 325, 816, 820
LmnI GCTCC 2 cut(s) 34, 877
Lsp1109I GCAGC 5 cut(s) 132, 251, 326, 358, 748
LweI GCATC 2 cut(s) 247, 458
MaeI CTAG 2 cut(s) 236, 582
MaeII ACGT 1 cut(s) 64
MaeIII GTNAC 2 cut(s) 65, 755
MalI GATC 6 cut(s) 164, 234, 293, 327, 818, 822
MboI GATC 6 cut(s) 162, 232, 291, 325, 816, 820
MboII GAAGA 3 cut(s) 115, 301, 715
MfeI CAATTG 1 cut(s) 642
MflI RGATCY 1 cut(s) 232
MhlI GDGCHC 1 cut(s) 185
MluCI AATT 6 cut(s) 44, 97, 421, 439, 495, 642
MlyI GAGTC 1 cut(s) 745
MmeI TCCRAC 1 cut(s) 713
MnlI CCTC 6 cut(s) 43, 225, 559, 693, 837, 885
Mph1103I ATGCAT 1 cut(s) 473
MseI TTAA 4 cut(s) 420, 513, 708, 889
MslI CAYNNNNRTG 1 cut(s) 197
MspA1I CMGCKG 1 cut(s) 317
MunI CAATTG 1 cut(s) 642
MwoI GCNNNNNNNGC 4 cut(s) 533, 542, 781, 785
NdeII GATC 6 cut(s) 162, 232, 291, 325, 816, 820
NlaIII CATG 2 cut(s) 189, 545
NmuCI GTSAC 1 cut(s) 65
NsiI ATGCAT 1 cut(s) 473
NspI RCATGY 1 cut(s) 545
PaeI GCATGC 1 cut(s) 545
PfeI GAWTC 2 cut(s) 20, 620
PflMI CCANNNNNTGG 1 cut(s) 669
PkrI GCNGC 7 cut(s) 119, 122, 241, 316, 373, 763, 766
PleI GAGTC 1 cut(s) 744
PpsI GAGTC 1 cut(s) 744
PspFI CCCAGC 1 cut(s) 458
PspPI GGNCC 1 cut(s) 189
PstI CTGCAG 1 cut(s) 376
PsuI RGATCY 1 cut(s) 232
PvuII CAGCTG 1 cut(s) 317
RsaI GTAC 1 cut(s) 354
RsaNI GTAC 1 cut(s) 353
RseI CAYNNNNRTG 1 cut(s) 197
SaqAI TTAA 4 cut(s) 420, 513, 708, 889
SatI GCNGC 7 cut(s) 118, 121, 240, 315, 372, 762, 765
Sau3AI GATC 6 cut(s) 162, 232, 291, 325, 816, 820
Sau96I GGNCC 1 cut(s) 189
SchI GAGTC 1 cut(s) 745
SduI GDGCHC 1 cut(s) 185
SfaNI GCATC 2 cut(s) 247, 458
SfcI CTRYAG 1 cut(s) 372
SinI GGWCC 1 cut(s) 189
SmiMI CAYNNNNRTG 1 cut(s) 197
SphI GCATGC 1 cut(s) 545
Sse9I AATT 6 cut(s) 44, 97, 421, 439, 495, 642
SsiI CCGC 3 cut(s) 117, 764, 767
SspMI CTAG 2 cut(s) 236, 582
StyI CCWWGG 1 cut(s) 344
TaaI ACNGT 3 cut(s) 39, 177, 630
TaiI ACGT 1 cut(s) 67
TaqI TCGA 1 cut(s) 819
TasI AATT 6 cut(s) 44, 97, 421, 439, 495, 642
TauI GCSGC 2 cut(s) 120, 767
TfiI GAWTC 2 cut(s) 20, 620
Tru1I TTAA 4 cut(s) 420, 513, 708, 889
Tru9I TTAA 4 cut(s) 420, 513, 708, 889
TscAI CASTG 1 cut(s) 140
TseFI GTSAC 1 cut(s) 65
TseI GCWGC 5 cut(s) 120, 239, 314, 371, 761
Tsp45I GTSAC 1 cut(s) 65
TspDTI ATGAA 4 cut(s) 302, 399, 825, 857
TspRI CASTG 1 cut(s) 140
Van91I CCANNNNNTGG 1 cut(s) 669
VpaK11BI GGWCC 1 cut(s) 189
XapI RAATTY 2 cut(s) 44, 439
XceI RCATGY 1 cut(s) 545
XspI CTAG 2 cut(s) 236, 582
Zsp2I ATGCAT 1 cut(s) 473
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.