RchiOBHm_Chr6g0273271

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0000842
Physical Location & Seq
Forward (+)
34131048 .. 34136257
5210 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ24517

Sequence Viewer

Length: 984 bp
ATGGACTCAGATATATCCATTGCTGATACTTTTCTATCCTACTATAAACAACTTTTCACCACAGCAGGACCACAAAATTTATCTGATATTCTTCTCCTTGTTGACCTAGTGGTTACTGCTTCAATGAATCGATCTTTGTTAGCTGCTGTTAGTTTGGAAGAGGTTAAACAAGCTATCTTTGGTTTGGGATCCCTCAAGGCACCTGGCCCAGACGGTTTTCCTGGTCTTTTTTATCAGACTTATTGGACTATTGTTAATAAGGTCATCCATCAAGCTACGACTTCCTTTTTCCAAACTGGTAATCTTTTATCAGAGCTTAACAAGACTCATTTGGTACTACTGCCGAAGGTTCCTCATCCTGAGCATGCTTTCCAGTTTCGGCCAATTGGACTATGTAACTTTTCCTATAAAATCTTGTCAAAAGTTATGGCTAATCGCTTGAAGCCCTTCATGCCTGAGTTAATTTCTGAAAACCAAGCAGCTTTTGTGGTTAGCAGGCAAATTCAGGATAATGTGGTGGTAGCTCATGAAATGTTCCATTATCTCAAGCTCCTACGCCATATGGGATTGGGAGCTTTTGGTTTGAAACTTGATATTTCTAAAGCCTATGATTCTGTTGAGTGGGACTTTCTTCATGCTGTACTTCTCAAGATGGGTTTCCATGTTCATTGGGTTATGCTTATAATGAACTGTGTCAGATCAGTGACACTTTCAATTTTGGTTAATGGTAAACCTTTTGCCTTCTTTGCTCTTACTCGTGGTTTACAACAAGGAGATCCCTTATCTCCATACCTCTTTCTTTTTGTCAATGATGTTTTATCAACAATGGTCTCCAAAGCTTGTGCTATTCATTGGCTTACTCCACTGCAAATCACACCCTTTGCACCCAAGATTAGCCATCTCTTATTTGTGGATGATTCGTTGTTCTTCTTTGATGCTACACAAGTTAATACTTCTCATCTTATGTTTCTGCTTCAGTCTTAA
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

327

Amino Acids

36.79

Weight (kDa)

7.23

Isoelectric Point (pI)

34.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 125 - 316 3.1e-26 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
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Orthologous Genes (Group: OG0000842)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g15420 FvH4_2g00771 FvH4_3g29363
malus_domestica MD02G1293300.v1.1 MD06G1023000.v1.1 MD09G1232900.v1.1
prunus_persica Prupe.1G181500_v2.0.a1 Prupe.1G572100_v2.0.a1 Prupe.2G095500_v2.0.a1 Prupe.3G150400_v2.0.a1 Prupe.3G156200_v2.0.a1 Prupe.4G274400_v2.0.a1 Prupe.5G070700_v2.0.a1 Prupe.7G038000_v2.0.a1 Prupe.7G164000_v2.0.a1 Prupe.8G056500_v2.0.a1
pyrus_communis pycom04g02040 pycom05g04600 pycom07g05610 pycom08g16130 pycom11g16470 pycom12g07830 pycom15g38190 pycom215g00040
rosa_chinensis RchiOBHm_Chr1g0348881 RchiOBHm_Chr5g0032951 RchiOBHm_Chr6g0273271 RchiOBHm_Chr7g0218191 RchiOBHm_Chr7g0223721
rosa_multiflora Rmu_co8286615.1_g000001 Rmu_sc0001354.1_g000002 Rmu_sc0001925.1_g000003 Rmu_sc0001925.1_g000005 Rmu_sc0002221.1_g000004 Rmu_sc0002316.1_g000096 Rmu_sc0003291.1_g000005 Rmu_sc0003413.1_g000005 Rmu_sc0003542.1_g000011 Rmu_sc0004035.1_g000003 Rmu_sc0004035.1_g000004 Rmu_sc0004145.1_g000016 Rmu_sc0004660.1_g000004 Rmu_sc0005999.1_g000006 Rmu_sc0006123.1_g000002 Rmu_sc0006586.1_g000006 Rmu_sc0006889.1_g000029 Rmu_sc0008035.1_g000014 Rmu_sc0011962.1_g000002 Rmu_sc0029950.1_g000001 Rmu_sc0042409.1_g000001 Rmu_ssc0000238.1_g000013
rosa_roxburghii Rroxscaffold_2G00137410 Rroxscaffold_4G00312010 Rroxscaffold_4G00320800 Rroxscaffold_5G00341720 Rroxscaffold_5G00353530 Rroxscaffold_5G00360290 Rroxscaffold_7G00214170 Rroxscaffold_7G00215920
rosa_rugosa Rorug02G0157000
rosa_samantha Rh4BG196500 Rh6CG346400 Rh7BG241100 Rh7DG316300
rosa_wichuraiana Rw1G003610 Rw7G012170 Rw7G030150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 683
AccB1I GGYRCC 1 cut(s) 199
AclWI GGATC 3 cut(s) 183, 196, 770
AcoI YGGCCR 1 cut(s) 380
AcsI RAATTY 2 cut(s) 76, 501
AcuI CTGAAG 1 cut(s) 959
AfaI GTAC 2 cut(s) 336, 642
AgsI TTSAA 4 cut(s) 123, 442, 586, 714
AjnI CCWGG 2 cut(s) 202, 220
AluBI AGCT 9 cut(s) 143, 173, 275, 316, 482, 524, 550, 575, 839
AluI AGCT 9 cut(s) 143, 173, 275, 316, 482, 524, 550, 575, 839
Alw26I GTCTC 1 cut(s) 835
AlwI GGATC 3 cut(s) 183, 196, 770
AoxI GGCC 2 cut(s) 205, 380
ApeKI GCWGC 2 cut(s) 143, 479
ApoI RAATTY 2 cut(s) 76, 501
Asp700I GAANNNNTTC 1 cut(s) 446
AspS9I GGNCC 2 cut(s) 68, 206
AsuHPI GGTGA 1 cut(s) 49
AvaII GGWCC 1 cut(s) 68
BamHI GGATCC 1 cut(s) 188
BanI GGYRCC 1 cut(s) 199
BauI CACGAG 1 cut(s) 756
BbvI GCAGC 2 cut(s) 130, 491
BccI CCATC 3 cut(s) 276, 646, 906
BciT130I CCWGG 2 cut(s) 204, 222
BcoDI GTCTC 1 cut(s) 835
BfaI CTAG 1 cut(s) 107
BisI GCNGC 2 cut(s) 144, 480
BlsI GCNGC 2 cut(s) 145, 481
Bme1390I CCNGG 2 cut(s) 204, 222
Bme18I GGWCC 1 cut(s) 68
BmgT120I GGNCC 2 cut(s) 68, 206
BmiI GGNNCC 3 cut(s) 190, 201, 351
BmrFI CCNGG 2 cut(s) 204, 222
BmsI GCATC 1 cut(s) 925
Bpu10I CCTNAGC 1 cut(s) 360
BpuEI CTTGAG 3 cut(s) 179, 530, 632
Bsa29I ATCGAT 1 cut(s) 130
BsaI GGTCTC 1 cut(s) 835
Bse1I ACTGG 2 cut(s) 301, 373
Bse3DI GCAATG 1 cut(s) 18
BseBI CCWGG 2 cut(s) 204, 222
BseCI ATCGAT 1 cut(s) 130
BseGI GGATG 3 cut(s) 264, 355, 919
BseMI GCAATG 1 cut(s) 18
BseMII CTCAG 3 cut(s) 21, 351, 447
BseNI ACTGG 2 cut(s) 301, 373
BseXI GCAGC 2 cut(s) 130, 491
BshFI GGCC 2 cut(s) 207, 382
BshNI GGYRCC 1 cut(s) 199
BshVI ATCGAT 1 cut(s) 130
BslFI GGGAC 1 cut(s) 638
BsmAI GTCTC 1 cut(s) 835
BsmFI GGGAC 1 cut(s) 638
BsnI GGCC 2 cut(s) 207, 382
Bso31I GGTCTC 1 cut(s) 835
Bsp143I GATC 4 cut(s) 131, 188, 698, 775
BspANI GGCC 2 cut(s) 207, 382
BspCNI CTCAG 3 cut(s) 20, 352, 448
BspDI ATCGAT 1 cut(s) 130
BspHI TCATGA 1 cut(s) 526
BspLI GGNNCC 3 cut(s) 190, 201, 351
BspPI GGATC 3 cut(s) 183, 196, 770
BspT107I GGYRCC 1 cut(s) 199
BspTNI GGTCTC 1 cut(s) 835
BsrDI GCAATG 1 cut(s) 18
BsrI ACTGG 2 cut(s) 301, 373
BssMI GATC 4 cut(s) 131, 188, 698, 775
BssSI CACGAG 1 cut(s) 756
Bst2BI CACGAG 1 cut(s) 756
Bst2UI CCWGG 2 cut(s) 204, 222
Bst4CI ACNGT 2 cut(s) 215, 692
Bst6I CTCTTC 1 cut(s) 153
BstC8I GCNNGC 2 cut(s) 366, 497
BstDEI CTNAG 3 cut(s) 7, 360, 456
BstF5I GGATG 3 cut(s) 264, 355, 919
BstKTI GATC 4 cut(s) 134, 191, 701, 778
BstMAI GTCTC 1 cut(s) 835
BstMBI GATC 4 cut(s) 131, 188, 698, 775
BstMWI GCNNNNNNNGC 2 cut(s) 451, 746
BstNI CCWGG 2 cut(s) 204, 222
BstNSI RCATGY 1 cut(s) 368
BstSCI CCNGG 2 cut(s) 202, 220
BstV1I GCAGC 2 cut(s) 130, 491
BstX2I RGATCY 2 cut(s) 188, 775
BstYI RGATCY 2 cut(s) 188, 775
Bsu15I ATCGAT 1 cut(s) 130
BsuRI GGCC 2 cut(s) 207, 382
BsuTUI ATCGAT 1 cut(s) 130
BtsCI GGATG 3 cut(s) 264, 355, 919
BtsI GCAGTG 1 cut(s) 863
BtsIMutI CAGTG 2 cut(s) 708, 863
Cac8I GCNNGC 2 cut(s) 366, 497
CciI TCATGA 1 cut(s) 526
Cfr13I GGNCC 2 cut(s) 68, 206
ClaI ATCGAT 1 cut(s) 130
Csp6I GTAC 2 cut(s) 335, 641
CviAII CATG 5 cut(s) 365, 451, 527, 635, 662
CviQI GTAC 2 cut(s) 335, 641
DdeI CTNAG 3 cut(s) 7, 360, 456
DpnI GATC 4 cut(s) 133, 190, 700, 777
DpnII GATC 4 cut(s) 131, 188, 698, 775
EaeI YGGCCR 1 cut(s) 380
Eam1104I CTCTTC 1 cut(s) 153
EarI CTCTTC 1 cut(s) 153
Eco31I GGTCTC 1 cut(s) 835
Eco47I GGWCC 1 cut(s) 68
Eco57I CTGAAG 1 cut(s) 959
EcoRII CCWGG 2 cut(s) 202, 220
FaeI CATG 5 cut(s) 368, 454, 530, 638, 665
FaqI GGGAC 1 cut(s) 638
FatI CATG 5 cut(s) 364, 450, 526, 634, 661
FauNDI CATATG 1 cut(s) 561
Fnu4HI GCNGC 2 cut(s) 144, 480
FokI GGATG 3 cut(s) 251, 342, 926
Fsp4HI GCNGC 2 cut(s) 144, 480
FspBI CTAG 1 cut(s) 107
GluI GCNGC 2 cut(s) 144, 480
HaeIII GGCC 2 cut(s) 207, 382
Hin1II CATG 5 cut(s) 368, 454, 530, 638, 665
HincII GTYRAC 1 cut(s) 103
HindII GTYRAC 1 cut(s) 103
HindIII AAGCTT 1 cut(s) 837
HinfI GANTC 5 cut(s) 5, 127, 325, 611, 917
HphI GGTGA 1 cut(s) 49
Hpy166II GTNNAC 3 cut(s) 103, 731, 764
Hpy188I TCNGA 6 cut(s) 10, 85, 237, 313, 469, 698
Hpy188III TCNNGA 4 cut(s) 359, 506, 527, 649
Hpy8I GTNNAC 3 cut(s) 103, 731, 764
HpyAV CCTTC 3 cut(s) 340, 457, 751
HpyCH4III ACNGT 2 cut(s) 215, 692
HpyCH4V TGCA 2 cut(s) 868, 884
HpyF10VI GCNNNNNNNGC 2 cut(s) 451, 746
HpyF3I CTNAG 3 cut(s) 7, 360, 456
Hsp92II CATG 5 cut(s) 368, 454, 530, 638, 665
Kzo9I GATC 4 cut(s) 131, 188, 698, 775
LmnI GCTCC 2 cut(s) 555, 572
Lsp1109I GCAGC 2 cut(s) 130, 491
LweI GCATC 1 cut(s) 925
MaeI CTAG 1 cut(s) 107
MaeIII GTNAC 3 cut(s) 112, 395, 703
MalI GATC 4 cut(s) 133, 190, 700, 777
MboI GATC 4 cut(s) 131, 188, 698, 775
MboII GAAGA 4 cut(s) 83, 170, 623, 919
MfeI CAATTG 1 cut(s) 384
MflI RGATCY 2 cut(s) 188, 775
MluCI AATT 5 cut(s) 76, 384, 462, 501, 714
MlyI GAGTC 1 cut(s) 319
MnlI CCTC 4 cut(s) 154, 203, 363, 803
MroXI GAANNNNTTC 1 cut(s) 446
MseI TTAA 7 cut(s) 165, 255, 318, 461, 723, 948, 982
MspR9I CCNGG 2 cut(s) 204, 222
MunI CAATTG 1 cut(s) 384
MvaI CCWGG 2 cut(s) 204, 222
MwoI GCNNNNNNNGC 2 cut(s) 451, 746
NdeI CATATG 1 cut(s) 561
NdeII GATC 4 cut(s) 131, 188, 698, 775
NlaIII CATG 5 cut(s) 368, 454, 530, 638, 665
NlaIV GGNNCC 3 cut(s) 190, 201, 351
NmuCI GTSAC 1 cut(s) 703
NspI RCATGY 1 cut(s) 368
PaeI GCATGC 1 cut(s) 368
PagI TCATGA 1 cut(s) 526
PdmI GAANNNNTTC 1 cut(s) 446
PfeI GAWTC 3 cut(s) 127, 611, 917
PkrI GCNGC 2 cut(s) 145, 481
PleI GAGTC 1 cut(s) 319
PpsI GAGTC 1 cut(s) 319
PsiI TTATAA 1 cut(s) 683
Psp6I CCWGG 2 cut(s) 202, 220
PspGI CCWGG 2 cut(s) 202, 220
PspN4I GGNNCC 3 cut(s) 190, 201, 351
PspPI GGNCC 2 cut(s) 68, 206
PsuI RGATCY 2 cut(s) 188, 775
RsaI GTAC 2 cut(s) 336, 642
RsaNI GTAC 2 cut(s) 335, 641
SaqAI TTAA 7 cut(s) 165, 255, 318, 461, 723, 948, 982
SatI GCNGC 2 cut(s) 144, 480
Sau3AI GATC 4 cut(s) 131, 188, 698, 775
Sau96I GGNCC 2 cut(s) 68, 206
SchI GAGTC 1 cut(s) 319
ScrFI CCNGG 2 cut(s) 204, 222
SfaNI GCATC 1 cut(s) 925
SinI GGWCC 1 cut(s) 68
SmlI CTYRAG 3 cut(s) 194, 545, 647
SmoI CTYRAG 3 cut(s) 194, 545, 647
SphI GCATGC 1 cut(s) 368
Sse9I AATT 5 cut(s) 76, 384, 462, 501, 714
SspMI CTAG 1 cut(s) 107
StyD4I CCNGG 2 cut(s) 202, 220
TaaI ACNGT 2 cut(s) 215, 692
TaqI TCGA 1 cut(s) 130
TasI AATT 5 cut(s) 76, 384, 462, 501, 714
TatI WGTACW 1 cut(s) 640
TfiI GAWTC 3 cut(s) 127, 611, 917
Tru1I TTAA 7 cut(s) 165, 255, 318, 461, 723, 948, 982
Tru9I TTAA 7 cut(s) 165, 255, 318, 461, 723, 948, 982
TscAI CASTG 2 cut(s) 708, 870
TseFI GTSAC 1 cut(s) 703
TseI GCWGC 2 cut(s) 143, 479
Tsp45I GTSAC 1 cut(s) 703
TspDTI ATGAA 7 cut(s) 140, 439, 543, 623, 656, 701, 839
TspRI CASTG 2 cut(s) 708, 870
VpaK11BI GGWCC 1 cut(s) 68
XapI RAATTY 2 cut(s) 76, 501
XceI RCATGY 1 cut(s) 368
XmnI GAANNNNTTC 1 cut(s) 446
XspI CTAG 1 cut(s) 107
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.