Rroxscaffold_5G00340210

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000254
Physical Location & Seq
Reverse (-)
8636408 .. 8637856
1449 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00340210.1

Sequence Viewer

Length: 849 bp
ATGGTCCATCTTTTACGTGATTGTCCTAATGCTCAACAGGTTTGGTCAACTCTTCCCATTCCTAATACAATGCAGATTACTTTTACTTTGGCATGGAGAGATTGGATTATTGCCAATTTGATGCAAAAAAGGTGCTTTTTTAGTAATATTCAATGGAATGTGTTCTTCATATTCAATTGTTGGTTCATAAGGAAATGGAGGTGTAAAAGAATCTTTAATCCATCTTTTCATGTCCCTTGCAATATCCCTGATGTTGTCCTGAGCTATGCAACAGATTGGGAAAATGCAAATCATAAAACTGTGGCTCAAAAAACTAAACAAACAGAGATGATCTCATGGTGTAAACCTGGTTTAGGTTTCTTTAAGCTAAATGTGGATGGTTCTAGGTCCTCTAGTGGTATGATTGGTTCAGGAGGAGTGATCAAAGATGCTACTGGTGAATGGATAAGTGGATTTATGGTGAACATTGGTGCTGGTTCAGTCATTCAAGCTGAGACTTGGGGGCTCTATCATGGCCTTCAAATTGCCTCTTCTCTGCATATTAATCACTTGGAGGTTGAATCTGACTCTGCTTGTTTAGTTCAACTGCTCCAAGCTGATACTACTGAATTGCACCCTCTTGGTACTATCCTCAGGAATTGCAAGCAGTTAATGAACCAATTTGATACCTGCCAGATTAGGCATATCCACAGAGAAGGTAATATGGTTGCTGATATTCTTGCTAAAGAAAGCATTCATCACGCTGCTGGTATTTGTACTTTCACCTCGGCTCCCGCTCTTGTTGTTGAAGCTGTCCTTGATGATATCCTGGGCGTTGCTCGACCTAGGAGAGTTGTTAACAATGGCTGA
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

282

Amino Acids

31.72

Weight (kDa)

8.06

Isoelectric Point (pI)

42.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 124 - 243 1.3e-26 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: OG0000254)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g25671 FvH4_1g29782 FvH4_2g06731 FvH4_2g09413 FvH4_2g12061 FvH4_2g12671 FvH4_2g14202 FvH4_3g27901 FvH4_3g30492 FvH4_3g36953 FvH4_4g10141 FvH4_4g11162 FvH4_5g27995 FvH4_5g34262 FvH4_6g10681 FvH4_6g13733 FvH4_6g18164 FvH4_6g25491 FvH4_6g25791 FvH4_6g27023 FvH4_6g34321 FvH4_7g05070
pyrus_communis pycom04g06850
rosa_chinensis RchiOBHm_Chr1g0322281 RchiOBHm_Chr1g0334981 RchiOBHm_Chr1g0371181 RchiOBHm_Chr2g0125461 RchiOBHm_Chr2g0127141 RchiOBHm_Chr2g0128961 RchiOBHm_Chr2g0132921 RchiOBHm_Chr3g0486471 RchiOBHm_Chr3g0492911 RchiOBHm_Chr4g0412131 RchiOBHm_Chr4g0426941 RchiOBHm_Chr4g0437331 RchiOBHm_Chr5g0018821 RchiOBHm_Chr5g0040021 RchiOBHm_Chr5g0051041 RchiOBHm_Chr6g0266871 RchiOBHm_Chr6g0271761 RchiOBHm_Chr7g0200931 RchiOBHm_Chr7g0220091
rosa_multiflora Rmu_co7991344.1_g000001 Rmu_sc0000172.1_g000008 Rmu_sc0000194.1_g000010 Rmu_sc0000446.1_g000026 Rmu_sc0000496.1_g000011 Rmu_sc0000530.1_g000013 Rmu_sc0000706.1_g000044 Rmu_sc0000745.1_g000029 Rmu_sc0001301.1_g000027 Rmu_sc0001520.1_g000008 Rmu_sc0001966.1_g000025 Rmu_sc0001989.1_g000007 Rmu_sc0002239.1_g000002 Rmu_sc0002816.1_g000004 Rmu_sc0003458.1_g000001 Rmu_sc0003825.1_g000031 Rmu_sc0003919.1_g000002 Rmu_sc0004053.1_g000007 Rmu_sc0004161.1_g000008 Rmu_sc0004368.1_g000033 Rmu_sc0004383.1_g000002 Rmu_sc0004923.1_g000002 Rmu_sc0005065.1_g000001 Rmu_sc0005478.1_g000001 Rmu_sc0006847.1_g000031 Rmu_sc0009556.1_g000002 Rmu_sc0010783.1_g000007 Rmu_sc0011424.1_g000022 Rmu_sc0013205.1_g000002 Rmu_sc0017407.1_g000001 Rmu_sc0023757.1_g000002 Rmu_sc0032346.1_g000001 Rmu_ssc0000008.1_g000014 Rmu_ssc0000158.1_g000033 Rmu_ssc0000217.1_g000028
rosa_roxburghii Rroxscaffold_1G00000480 Rroxscaffold_1G00026050 Rroxscaffold_1G00026250 Rroxscaffold_2G00085120 Rroxscaffold_2G00119710 Rroxscaffold_2G00126610 Rroxscaffold_2G00129340 Rroxscaffold_3G00245550 Rroxscaffold_5G00340210 Rroxscaffold_5G00340330 Rroxscaffold_6G00397180 Rroxscaffold_7G00216160
rosa_rugosa Rorug01G0040000 Rorug01G0067400 Rorug01G0092300 Rorug01G0197000 Rorug01G0474200 Rorug01G0482500 Rorug01G0489300 Rorug02G0142900 Rorug02G0259000 Rorug02G0283200 Rorug02G0341400 Rorug02G0341600 Rorug02G0370900 Rorug02G0379700 Rorug02G0386100 Rorug02G0387300 Rorug03G0112600 Rorug03G0265600 Rorug03G0298800 Rorug04G0019500 Rorug05G0069900 Rorug05G0070500 Rorug05G0256800 Rorug05G0287300 Rorug05G0592000 Rorug06G0057800 Rorug06G0082000 Rorug06G0118900 Rorug06G0176500 Rorug06G0423100 Rorug07G0050100 Rorug07G0095100 Rorug07G0202100 Rorug07G0216600 Rorug07G0244300 Rorug07G0245500
rosa_samantha Rh1DG154800 Rh2CG613000 Rh6BG016600 Rh6BG475100 Rh6CG013200 Rh7AG443800
rosa_wichuraiana Rw0G021840 Rw4G023650

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 677
AccBSI CCGCTC 1 cut(s) 776
AciI CCGC 1 cut(s) 774
AfaI GTAC 2 cut(s) 625, 757
AfiI CCNNNNNNNGG 1 cut(s) 353
AgsI TTSAA 7 cut(s) 152, 175, 488, 521, 560, 584, 788
AjnI CCWGG 2 cut(s) 346, 807
AluBI AGCT 5 cut(s) 264, 367, 491, 596, 791
AluI AGCT 5 cut(s) 264, 367, 491, 596, 791
Alw26I GTCTC 1 cut(s) 488
AoxI GGCC 1 cut(s) 514
ApeKI GCWGC 1 cut(s) 743
AseI ATTAAT 1 cut(s) 543
Asp700I GAANNNNTTC 2 cut(s) 161, 732
AspA2I CCTAGG 1 cut(s) 824
AspS9I GGNCC 2 cut(s) 4, 387
AsuHPI GGTGA 3 cut(s) 449, 472, 754
AvaII GGWCC 2 cut(s) 4, 387
AvrII CCTAGG 1 cut(s) 824
AxyI CCTNAGG 1 cut(s) 632
BanII GRGCYC 1 cut(s) 507
BbvI GCAGC 1 cut(s) 730
BccI CCATC 3 cut(s) 15, 229, 371
BciT130I CCWGG 2 cut(s) 348, 809
BclI TGATCA 1 cut(s) 420
BcoDI GTCTC 1 cut(s) 488
BfaI CTAG 3 cut(s) 384, 393, 825
BfuAI ACCTGC 1 cut(s) 677
BisI GCNGC 1 cut(s) 744
BlnI CCTAGG 1 cut(s) 824
BlsI GCNGC 1 cut(s) 745
Bme1390I CCNGG 2 cut(s) 348, 809
Bme18I GGWCC 2 cut(s) 4, 387
BmgT120I GGNCC 2 cut(s) 4, 387
BmiI GGNNCC 1 cut(s) 771
BmrFI CCNGG 2 cut(s) 348, 809
BmsI GCATC 2 cut(s) 111, 418
BplI GAGNNNNNCTC 2 cut(s) 317, 349
Bpu10I CCTNAGC 1 cut(s) 260
BsaAI YACGTR 1 cut(s) 17
BsaJI CCNNGG 3 cut(s) 765, 808, 824
BsaXI ACNNNNNCTCC 2 cut(s) 754, 784
Bsc4I CCNNNNNNNGG 1 cut(s) 353
Bse1I ACTGG 1 cut(s) 439
Bse21I CCTNAGG 1 cut(s) 632
BseBI CCWGG 2 cut(s) 348, 809
BseDI CCNNGG 3 cut(s) 765, 808, 824
BseGI GGATG 1 cut(s) 382
BseLI CCNNNNNNNGG 1 cut(s) 353
BseMII CTCAG 3 cut(s) 251, 483, 646
BseNI ACTGG 1 cut(s) 439
BseRI GAGGAG 1 cut(s) 429
BseXI GCAGC 1 cut(s) 730
BshFI GGCC 1 cut(s) 516
BslFI GGGAC 1 cut(s) 218
BslI CCNNNNNNNGG 1 cut(s) 353
BsmAI GTCTC 1 cut(s) 488
BsmFI GGGAC 1 cut(s) 218
BsmI GAATGC 1 cut(s) 732
BsnI GGCC 1 cut(s) 516
Bsp1286I GDGCHC 1 cut(s) 507
Bsp143I GATC 2 cut(s) 330, 420
BspACI CCGC 1 cut(s) 774
BspANI GGCC 1 cut(s) 516
BspCNI CTCAG 3 cut(s) 252, 484, 645
BspLI GGNNCC 1 cut(s) 771
BspMI ACCTGC 1 cut(s) 677
BsrBI CCGCTC 1 cut(s) 776
BsrI ACTGG 1 cut(s) 439
BssECI CCNNGG 3 cut(s) 765, 808, 824
BssMI GATC 2 cut(s) 330, 420
BssT1I CCWWGG 1 cut(s) 824
Bst2UI CCWGG 2 cut(s) 348, 809
Bst4CI ACNGT 1 cut(s) 301
Bst6I CTCTTC 2 cut(s) 57, 535
BstBAI YACGTR 1 cut(s) 17
BstC8I GCNNGC 1 cut(s) 644
BstDEI CTNAG 3 cut(s) 260, 492, 632
BstENI CCTNNNNNAGG 1 cut(s) 351
BstF5I GGATG 1 cut(s) 382
BstKTI GATC 2 cut(s) 333, 423
BstMAI GTCTC 1 cut(s) 488
BstMBI GATC 2 cut(s) 330, 420
BstNI CCWGG 2 cut(s) 348, 809
BstSCI CCNGG 2 cut(s) 346, 807
BstV1I GCAGC 1 cut(s) 730
Bsu36I CCTNAGG 1 cut(s) 632
BsuRI GGCC 1 cut(s) 516
BtsCI GGATG 1 cut(s) 382
BveI ACCTGC 1 cut(s) 677
Cac8I GCNNGC 1 cut(s) 644
Cfr13I GGNCC 2 cut(s) 4, 387
CsiI ACCWGGT 1 cut(s) 346
Csp6I GTAC 2 cut(s) 624, 756
CviAII CATG 4 cut(s) 93, 230, 336, 512
CviQI GTAC 2 cut(s) 624, 756
DdeI CTNAG 3 cut(s) 260, 492, 632
DpnI GATC 2 cut(s) 332, 422
DpnII GATC 2 cut(s) 330, 420
Eam1104I CTCTTC 2 cut(s) 57, 535
EarI CTCTTC 2 cut(s) 57, 535
Eco130I CCWWGG 1 cut(s) 824
Eco24I GRGCYC 1 cut(s) 507
Eco32I GATATC 1 cut(s) 805
Eco47I GGWCC 2 cut(s) 4, 387
Eco81I CCTNAGG 1 cut(s) 632
EcoNI CCTNNNNNAGG 1 cut(s) 351
EcoO109I RGGNCCY 1 cut(s) 387
EcoRII CCWGG 2 cut(s) 346, 807
EcoRV GATATC 1 cut(s) 805
EcoT14I CCWWGG 1 cut(s) 824
EcoT38I GRGCYC 1 cut(s) 507
ErhI CCWWGG 1 cut(s) 824
FaeI CATG 4 cut(s) 96, 233, 339, 515
FalI AAGNNNNNCTT 2 cut(s) 780, 812
FaqI GGGAC 1 cut(s) 218
FatI CATG 4 cut(s) 92, 229, 335, 511
FauI CCCGC 1 cut(s) 781
FbaI TGATCA 1 cut(s) 420
Fnu4HI GCNGC 1 cut(s) 744
FokI GGATG 1 cut(s) 389
FriOI GRGCYC 1 cut(s) 507
Fsp4HI GCNGC 1 cut(s) 744
FspBI CTAG 3 cut(s) 384, 393, 825
GluI GCNGC 1 cut(s) 744
HaeIII GGCC 1 cut(s) 516
Hin1II CATG 4 cut(s) 96, 233, 339, 515
HincII GTYRAC 2 cut(s) 48, 838
HindII GTYRAC 2 cut(s) 48, 838
HinfI GANTC 3 cut(s) 210, 560, 566
HpaI GTTAAC 1 cut(s) 838
HphI GGTGA 3 cut(s) 449, 472, 754
Hpy166II GTNNAC 4 cut(s) 48, 344, 463, 838
Hpy188I TCNGA 1 cut(s) 565
Hpy188III TCNNGA 3 cut(s) 259, 411, 634
Hpy8I GTNNAC 4 cut(s) 48, 344, 463, 838
HpyAV CCTTC 2 cut(s) 527, 689
HpyCH4III ACNGT 1 cut(s) 301
HpyCH4IV ACGT 1 cut(s) 16
HpyCH4V TGCA 8 cut(s) 73, 124, 240, 269, 287, 538, 613, 642
HpyF3I CTNAG 3 cut(s) 260, 492, 632
HpySE526I ACGT 1 cut(s) 16
Hsp92II CATG 4 cut(s) 96, 233, 339, 515
Ksp22I TGATCA 1 cut(s) 420
KspAI GTTAAC 1 cut(s) 838
Kzo9I GATC 2 cut(s) 330, 420
LmnI GCTCC 2 cut(s) 594, 775
Lsp1109I GCAGC 1 cut(s) 730
LweI GCATC 2 cut(s) 111, 418
MabI ACCWGGT 1 cut(s) 346
MaeI CTAG 3 cut(s) 384, 393, 825
MaeII ACGT 1 cut(s) 16
MalI GATC 2 cut(s) 332, 422
MbiI CCGCTC 1 cut(s) 776
MboI GATC 2 cut(s) 330, 420
MboII GAAGA 3 cut(s) 44, 157, 522
MfeI CAATTG 1 cut(s) 175
MhlI GDGCHC 1 cut(s) 507
MluCI AATT 6 cut(s) 115, 175, 522, 608, 637, 659
MlyI GAGTC 1 cut(s) 560
MnlI CCTC 8 cut(s) 192, 400, 407, 538, 547, 627, 641, 775
MroXI GAANNNNTTC 2 cut(s) 161, 732
MseI TTAA 5 cut(s) 216, 363, 543, 650, 837
MspR9I CCNGG 2 cut(s) 348, 809
MunI CAATTG 1 cut(s) 175
Mva1269I GAATGC 1 cut(s) 732
MvaI CCWGG 2 cut(s) 348, 809
NdeII GATC 2 cut(s) 330, 420
NlaIII CATG 4 cut(s) 96, 233, 339, 515
NlaIV GGNNCC 1 cut(s) 771
NmeAIII GCCGAG 1 cut(s) 746
PctI GAATGC 1 cut(s) 732
PdmI GAANNNNTTC 2 cut(s) 161, 732
PfeI GAWTC 2 cut(s) 210, 560
PkrI GCNGC 1 cut(s) 745
PleI GAGTC 1 cut(s) 560
PpsI GAGTC 1 cut(s) 560
Ppu21I YACGTR 1 cut(s) 17
PpuMI RGGWCCY 1 cut(s) 387
PshBI ATTAAT 1 cut(s) 543
Psp5II RGGWCCY 1 cut(s) 387
Psp6I CCWGG 2 cut(s) 346, 807
PspGI CCWGG 2 cut(s) 346, 807
PspN4I GGNNCC 1 cut(s) 771
PspPI GGNCC 2 cut(s) 4, 387
PspPPI RGGWCCY 1 cut(s) 387
PsrI GAACNNNNNNTAC 2 cut(s) 391, 423
RsaI GTAC 2 cut(s) 625, 757
RsaNI GTAC 2 cut(s) 624, 756
SaqAI TTAA 5 cut(s) 216, 363, 543, 650, 837
SatI GCNGC 1 cut(s) 744
Sau3AI GATC 2 cut(s) 330, 420
Sau96I GGNCC 2 cut(s) 4, 387
SchI GAGTC 1 cut(s) 560
ScrFI CCNGG 2 cut(s) 348, 809
SduI GDGCHC 1 cut(s) 507
SexAI ACCWGGT 1 cut(s) 346
SfaNI GCATC 2 cut(s) 111, 418
SinI GGWCC 2 cut(s) 4, 387
Sse9I AATT 6 cut(s) 115, 175, 522, 608, 637, 659
SsiI CCGC 1 cut(s) 774
SspI AATATT 1 cut(s) 148
SspMI CTAG 3 cut(s) 384, 393, 825
StyD4I CCNGG 2 cut(s) 346, 807
StyI CCWWGG 1 cut(s) 824
TaaI ACNGT 1 cut(s) 301
TaiI ACGT 1 cut(s) 19
TaqI TCGA 1 cut(s) 820
TasI AATT 6 cut(s) 115, 175, 522, 608, 637, 659
TatI WGTACW 1 cut(s) 755
TfiI GAWTC 2 cut(s) 210, 560
Tru1I TTAA 5 cut(s) 216, 363, 543, 650, 837
Tru9I TTAA 5 cut(s) 216, 363, 543, 650, 837
TseI GCWGC 1 cut(s) 743
TspDTI ATGAA 5 cut(s) 157, 175, 218, 668, 725
VpaK11BI GGWCC 2 cut(s) 4, 387
VspI ATTAAT 1 cut(s) 543
XagI CCTNNNNNAGG 1 cut(s) 351
XmaJI CCTAGG 1 cut(s) 824
XmnI GAANNNNTTC 2 cut(s) 161, 732
XspI CTAG 3 cut(s) 384, 393, 825
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.