Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0007200

Physical Location & Seq

Genomic Coordinates Forward (+)

5182374 .. 5185978

Gene Structure 3605 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000010901

Sequence Viewer

CDS Protein Promoter (2k)

Length: 924 bp

ATGGCTTTGTGGCAAGGTTTCGATGAAACTCGTCTTCTCATAGCAGCTGATCCTCCTGTAGCCGGAGACGGCGCCGGACAACTGATTTCGCTCCGCCACCCAAAATCCGGAAACACAATGTGCTGTGTTTTAGTTGATGGGATGCTCCAGGAACTTAATTGGTTCAGGCAGTCCTACAGTTCTTGGTTTCTTGGAGACTATGTTTCTGAGGATGGTGGGATATATACCGCCACTCGTGTTGATCCTGTTTTCATTTTGTTGCCCATTTTTGAGGAAGCTAGAATGAAGAAAGGGGACGATCCTGGGAAGTACAGGCCATTGGATGAGATAATCTTCGTTGATGGCTATCCTGGATATCAGCAACTTTTGTCCATCGCGGAGATTTCTATGCAAGTAGTTTGTGATATCAAAGAAATTGATTCCTCCAAATATTTTAGGCTTGACGACTCCAAGGTTCTGGCTTGGTTGTACCATAAGGCATGCCAGCTAAAACAAACGCTATCCACGTTGGACAGTAATTATGCTGCAAGGGAAGAAAAGCATAGATTGGCTGATGCGGTTTCAATATTAGGGGAATACCTGAAGGATGAGCCCTGGTTGAAGCTTTTGTGTGACCATTTGAGGATAGATTTACCAGAGGCACCAAAAAAAGCACCAGATGCTGAAACTCTCCCAACTGCCAACGAAAGTAGCCCAGGGGTTTGGAATGGTTCACAGGAAAAGAGCAAGAGTGACAATAAGGTTACTACCAGAGCTGCTGGAAGGCAAGCTAAAAAGATCAAACTGGAGACGGGATCACATAACATCAGAGACATGTTCACTAGGGCCTCATCAATTCAGGTTGTAAAGCAGGGAAGAAGAATAAGGAATATACAATCTGTCTCTCAAGCAGAAGATTTTCCACAGCTCCGTAAGGAAATATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03030 map03030

Pfam Domains

Protein Families

RNase_H2-Ydr279

Protein Analysis

308

Amino Acids

34.61

Weight (kDa)

6.03

Isoelectric Point (pI)

48.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ydr279_N	PF17745	27 - 81	7.8e-06	Ydr279p protein triple barrel domain
RNase_H2-Ydr279	PF09468	84 - 167	1.7e-10	Ydr279p protein family (RNase H2 complex component) wHTH domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0007200)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20325 AT4G20325
fragaria_vesca	FvH4_2g36540 FvH4_2g36540 FvH4_2g36540 FvH4_2g36540 FvH4_2g36540 FvH4_2g36540
malus_domestica	MD08G1125300.v1.1 MD15G1105100.v1.1
prunus_persica	Prupe.1G456900_v2.0.a1
pyrus_communis	pycom08g10420 pycom08g10430 pycom15g09540
rosa_chinensis	RchiOBHm_Chr6g0305311
rosa_laevigata	RLG00000010901
rosa_multiflora	Rmu_ssc0000148.1_g000002
rosa_roxburghii	Rroxscaffold_7G00162910
rosa_rugosa	Rorug06G0339500
rosa_samantha	Rh1CG439200 Rh6AG451100 Rh6BG450200 Rh6CG465400 Rh6DG451900
rosa_wichuraiana	Rw6G039320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	71, 640
AccII	CGCG	1 cut(s)	377
AccIII	TCCGGA	1 cut(s)	107
AciI	CCGC	4 cut(s)	94, 228, 377, 557
AclWI	GGATC	4 cut(s)	44, 236, 293, 802
AcuI	CTGAAG	1 cut(s)	602
AcyI	GRCGYC	1 cut(s)	72
AdeI	CACNNNGTG	1 cut(s)	120
AfaI	GTAC	2 cut(s)	311, 470
AfiI	CCNNNNNNNGG	2 cut(s)	62, 107
AflIII	ACRYGT	1 cut(s)	813
AgsI	TTSAA	2 cut(s)	564, 601
AjnI	CCWGG	5 cut(s)	147, 301, 349, 593, 694
AluBI	AGCT	7 cut(s)	47, 278, 487, 604, 755, 770, 907
AluI	AGCT	7 cut(s)	47, 278, 487, 604, 755, 770, 907
Alw26I	GTCTC	5 cut(s)	60, 189, 782, 804, 886
AlwI	GGATC	4 cut(s)	44, 236, 293, 802
AlwNI	CAGNNNCTG	1 cut(s)	662
Aor13HI	TCCGGA	1 cut(s)	107
AoxI	GGCC	2 cut(s)	314, 825
ApeKI	GCWGC	3 cut(s)	44, 524, 755
Asp700I	GAANNNNTTC	1 cut(s)	897
AspLEI	GCGC	1 cut(s)	74
AspS9I	GGNCC	1 cut(s)	825
BanI	GGYRCC	2 cut(s)	71, 640
BanII	GRGCYC	1 cut(s)	594
BauI	CACGAG	1 cut(s)	234
BbsI	GAAGAC	1 cut(s)	26
BbvI	GCAGC	3 cut(s)	56, 511, 742
BccI	CCATC	4 cut(s)	131, 206, 335, 380
BceAI	ACGGC	1 cut(s)	85
BciT130I	CCWGG	5 cut(s)	149, 303, 351, 595, 696
BcoDI	GTCTC	5 cut(s)	60, 189, 782, 804, 886
BfaI	CTAG	2 cut(s)	279, 822
BfmI	CTRYAG	2 cut(s)	57, 175
BfoI	RGCGCY	1 cut(s)	75
BisI	GCNGC	3 cut(s)	45, 525, 756
BlsI	GCNGC	3 cut(s)	46, 526, 757
Bme1390I	CCNGG	5 cut(s)	149, 303, 351, 595, 696
BmgT120I	GGNCC	1 cut(s)	825
BmiI	GGNNCC	2 cut(s)	73, 642
BmrFI	CCNGG	5 cut(s)	149, 303, 351, 595, 696
BmsI	GCATC	3 cut(s)	132, 544, 649
BpiI	GAAGAC	1 cut(s)	26
BpmI	CTGGAG	2 cut(s)	131, 806
BpuEI	CTTGAG	1 cut(s)	870
BsaBI	GATNNNNATC	1 cut(s)	345
BsaHI	GRCGYC	1 cut(s)	72
BsaJI	CCNNGG	5 cut(s)	302, 450, 593, 694, 695
BsaWI	WCCGGW	1 cut(s)	107
BsaXI	ACNNNNNCTCC	2 cut(s)	186, 216
Bsc4I	CCNNNNNNNGG	2 cut(s)	62, 107
Bse1I	ACTGG	1 cut(s)	789
Bse8I	GATNNNNATC	1 cut(s)	345
BseAI	TCCGGA	1 cut(s)	107
BseBI	CCWGG	5 cut(s)	149, 303, 351, 595, 696
BseDI	CCNNGG	5 cut(s)	302, 450, 593, 694, 695
BseGI	GGATG	4 cut(s)	147, 217, 328, 592
BseJI	GATNNNNATC	1 cut(s)	345
BseLI	CCNNNNNNNGG	2 cut(s)	62, 107
BseMII	CTCAG	1 cut(s)	198
BseNI	ACTGG	1 cut(s)	789
BseXI	GCAGC	3 cut(s)	56, 511, 742
Bsh1236I	CGCG	1 cut(s)	377
BshFI	GGCC	2 cut(s)	316, 827
BshNI	GGYRCC	2 cut(s)	71, 640
BsiSI	CCGG	3 cut(s)	63, 75, 108
BslFI	GGGAC	1 cut(s)	308
BslI	CCNNNNNNNGG	2 cut(s)	62, 107
BsmAI	GTCTC	5 cut(s)	60, 189, 782, 804, 886
BsmBI	CGTCTC	2 cut(s)	60, 782
BsmFI	GGGAC	1 cut(s)	308
BsnI	GGCC	2 cut(s)	316, 827
Bsp1286I	GDGCHC	1 cut(s)	594
Bsp13I	TCCGGA	1 cut(s)	107
Bsp143I	GATC	5 cut(s)	49, 241, 298, 777, 794
BspACI	CCGC	4 cut(s)	94, 228, 377, 557
BspANI	GGCC	2 cut(s)	316, 827
BspCNI	CTCAG	1 cut(s)	199
BspEI	TCCGGA	1 cut(s)	107
BspFNI	CGCG	1 cut(s)	377
BspLI	GGNNCC	2 cut(s)	73, 642
BspPI	GGATC	4 cut(s)	44, 236, 293, 802
BspT107I	GGYRCC	2 cut(s)	71, 640
BsrI	ACTGG	1 cut(s)	789
BssECI	CCNNGG	5 cut(s)	302, 450, 593, 694, 695
BssMI	GATC	5 cut(s)	49, 241, 298, 777, 794
BssNI	GRCGYC	1 cut(s)	72
BssSI	CACGAG	1 cut(s)	234
BssT1I	CCWWGG	1 cut(s)	450
Bst2BI	CACGAG	1 cut(s)	234
Bst2UI	CCWGG	5 cut(s)	149, 303, 351, 595, 696
Bst4CI	ACNGT	2 cut(s)	179, 515
BstACI	GRCGYC	1 cut(s)	72
BstAPI	GCANNNNNTGC	1 cut(s)	659
BstC8I	GCNNGC	3 cut(s)	481, 485, 768
BstDEI	CTNAG	1 cut(s)	207
BstF5I	GGATG	4 cut(s)	147, 217, 328, 592
BstFNI	CGCG	1 cut(s)	377
BstH2I	RGCGCY	1 cut(s)	75
BstHHI	GCGC	1 cut(s)	74
BstKTI	GATC	5 cut(s)	52, 244, 301, 780, 797
BstMAI	GTCTC	5 cut(s)	60, 189, 782, 804, 886
BstMBI	GATC	5 cut(s)	49, 241, 298, 777, 794
BstMWI	GCNNNNNNNGC	1 cut(s)	659
BstNI	CCWGG	5 cut(s)	149, 303, 351, 595, 696
BstNSI	RCATGY	2 cut(s)	483, 817
BstSCI	CCNGG	5 cut(s)	147, 301, 349, 593, 694
BstSFI	CTRYAG	2 cut(s)	57, 175
BstUI	CGCG	1 cut(s)	377
BstV1I	GCAGC	3 cut(s)	56, 511, 742
BstV2I	GAAGAC	1 cut(s)	26
BstXI	CCANNNNNNTGG	2 cut(s)	457, 702
BsuRI	GGCC	2 cut(s)	316, 827
BtgZI	GCGATG	1 cut(s)	358
BtsCI	GGATG	4 cut(s)	147, 217, 328, 592
Cac8I	GCNNGC	3 cut(s)	481, 485, 768
CaiI	CAGNNNCTG	1 cut(s)	662
CfoI	GCGC	1 cut(s)	74
Cfr13I	GGNCC	1 cut(s)	825
Csp6I	GTAC	2 cut(s)	310, 469
CspCI	CAANNNNNGTGG	2 cut(s)	220, 255
CviAII	CATG	2 cut(s)	480, 814
CviQI	GTAC	2 cut(s)	310, 469
DdeI	CTNAG	1 cut(s)	207
DinI	GGCGCC	1 cut(s)	73
DpnI	GATC	5 cut(s)	51, 243, 300, 779, 796
DpnII	GATC	5 cut(s)	49, 241, 298, 777, 794
DraIII	CACNNNGTG	1 cut(s)	120
EciI	GGCGGA	1 cut(s)	83
Eco130I	CCWWGG	1 cut(s)	450
Eco24I	GRGCYC	1 cut(s)	594
Eco32I	GATATC	2 cut(s)	356, 406
Eco57I	CTGAAG	1 cut(s)	602
EcoO109I	RGGNCCY	1 cut(s)	825
EcoRII	CCWGG	5 cut(s)	147, 301, 349, 593, 694
EcoRV	GATATC	2 cut(s)	356, 406
EcoT14I	CCWWGG	1 cut(s)	450
EcoT38I	GRGCYC	1 cut(s)	594
EgeI	GGCGCC	1 cut(s)	73
EheI	GGCGCC	1 cut(s)	73
ErhI	CCWWGG	1 cut(s)	450
Esp3I	CGTCTC	2 cut(s)	60, 782
FaeI	CATG	2 cut(s)	483, 817
FaqI	GGGAC	1 cut(s)	308
FatI	CATG	2 cut(s)	479, 813
Fnu4HI	GCNGC	3 cut(s)	45, 525, 756
FokI	GGATG	4 cut(s)	154, 224, 335, 599
FriOI	GRGCYC	1 cut(s)	594
Fsp4HI	GCNGC	3 cut(s)	45, 525, 756
FspBI	CTAG	2 cut(s)	279, 822
GlaI	GCGC	1 cut(s)	73
GluI	GCNGC	3 cut(s)	45, 525, 756
GsuI	CTGGAG	2 cut(s)	131, 806
HaeII	RGCGCY	1 cut(s)	75
HaeIII	GGCC	2 cut(s)	316, 827
HapII	CCGG	3 cut(s)	63, 75, 108
HhaI	GCGC	1 cut(s)	74
Hin1I	GRCGYC	1 cut(s)	72
Hin1II	CATG	2 cut(s)	483, 817
Hin6I	GCGC	1 cut(s)	72
HinP1I	GCGC	1 cut(s)	72
HindIII	AAGCTT	1 cut(s)	602
HinfI	GANTC	2 cut(s)	419, 446
HpaII	CCGG	3 cut(s)	63, 75, 108
Hpy166II	GTNNAC	2 cut(s)	713, 819
Hpy188I	TCNGA	2 cut(s)	208, 809
Hpy188III	TCNNGA	1 cut(s)	108
Hpy8I	GTNNAC	2 cut(s)	713, 819
HpyAV	CCTTC	2 cut(s)	577, 756
HpyCH4III	ACNGT	2 cut(s)	179, 515
HpyCH4IV	ACGT	1 cut(s)	506
HpyCH4V	TGCA	2 cut(s)	391, 527
HpyF10VI	GCNNNNNNNGC	1 cut(s)	659
HpyF3I	CTNAG	1 cut(s)	207
HpySE526I	ACGT	1 cut(s)	506
Hsp92I	GRCGYC	1 cut(s)	72
Hsp92II	CATG	2 cut(s)	483, 817
HspAI	GCGC	1 cut(s)	72
KasI	GGCGCC	1 cut(s)	71
Kpn2I	TCCGGA	1 cut(s)	107
Kzo9I	GATC	5 cut(s)	49, 241, 298, 777, 794
LmnI	GCTCC	3 cut(s)	96, 150, 912
Lsp1109I	GCAGC	3 cut(s)	56, 511, 742
LweI	GCATC	3 cut(s)	132, 544, 649
MaeI	CTAG	2 cut(s)	279, 822
MaeII	ACGT	1 cut(s)	506
MaeIII	GTNAC	3 cut(s)	611, 731, 742
MalI	GATC	5 cut(s)	51, 243, 300, 779, 796
MboI	GATC	5 cut(s)	49, 241, 298, 777, 794
MboII	GAAGA	7 cut(s)	26, 298, 325, 545, 867, 870, 905
MhlI	GDGCHC	1 cut(s)	594
MluCI	AATT	4 cut(s)	157, 414, 517, 834
Mly113I	GGCGCC	1 cut(s)	72
MlyI	GAGTC	1 cut(s)	440
MmeI	TCCRAC	1 cut(s)	489
MnlI	CCTC	7 cut(s)	63, 202, 265, 433, 615, 631, 838
MroI	TCCGGA	1 cut(s)	107
MroXI	GAANNNNTTC	1 cut(s)	897
MseI	TTAA	1 cut(s)	156
MspA1I	CMGCKG	1 cut(s)	47
MspI	CCGG	3 cut(s)	63, 75, 108
MspR9I	CCNGG	5 cut(s)	149, 303, 351, 595, 696
MvaI	CCWGG	5 cut(s)	149, 303, 351, 595, 696
MvnI	CGCG	1 cut(s)	377
MwoI	GCNNNNNNNGC	1 cut(s)	659
NarI	GGCGCC	1 cut(s)	72
NdeII	GATC	5 cut(s)	49, 241, 298, 777, 794
NlaIII	CATG	2 cut(s)	483, 817
NlaIV	GGNNCC	2 cut(s)	73, 642
NmuCI	GTSAC	2 cut(s)	611, 731
NspI	RCATGY	2 cut(s)	483, 817
PaeI	GCATGC	1 cut(s)	483
PasI	CCCWGGG	1 cut(s)	695
PciI	ACATGT	1 cut(s)	813
PcsI	WCGNNNNNNNCGW	1 cut(s)	503
PdmI	GAANNNNTTC	1 cut(s)	897
PfeI	GAWTC	1 cut(s)	419
PfoI	TCCNGGA	2 cut(s)	147, 349
PkrI	GCNGC	3 cut(s)	46, 526, 757
PleI	GAGTC	1 cut(s)	440
PluTI	GGCGCC	1 cut(s)	75
PpsI	GAGTC	1 cut(s)	440
PscI	ACATGT	1 cut(s)	813
Psp6I	CCWGG	5 cut(s)	147, 301, 349, 593, 694
PspGI	CCWGG	5 cut(s)	147, 301, 349, 593, 694
PspN4I	GGNNCC	2 cut(s)	73, 642
PspPI	GGNCC	1 cut(s)	825
PstNI	CAGNNNCTG	1 cut(s)	662
PvuII	CAGCTG	1 cut(s)	47
RsaI	GTAC	2 cut(s)	311, 470
RsaNI	GTAC	2 cut(s)	310, 469
SaqAI	TTAA	1 cut(s)	156
SatI	GCNGC	3 cut(s)	45, 525, 756
Sau3AI	GATC	5 cut(s)	49, 241, 298, 777, 794
Sau96I	GGNCC	1 cut(s)	825
SchI	GAGTC	1 cut(s)	440
ScrFI	CCNGG	5 cut(s)	149, 303, 351, 595, 696
SduI	GDGCHC	1 cut(s)	594
SfaNI	GCATC	3 cut(s)	132, 544, 649
SfcI	CTRYAG	2 cut(s)	57, 175
SfoI	GGCGCC	1 cut(s)	73
SmlI	CTYRAG	1 cut(s)	885
SmoI	CTYRAG	1 cut(s)	885
SphI	GCATGC	1 cut(s)	483
Sse9I	AATT	4 cut(s)	157, 414, 517, 834
SsiI	CCGC	4 cut(s)	94, 228, 377, 557
SspDI	GGCGCC	1 cut(s)	71
SspI	AATATT	2 cut(s)	431, 567
SspMI	CTAG	2 cut(s)	279, 822
StyD4I	CCNGG	5 cut(s)	147, 301, 349, 593, 694
StyI	CCWWGG	1 cut(s)	450
TaaI	ACNGT	2 cut(s)	179, 515
TaiI	ACGT	1 cut(s)	509
TaqI	TCGA	1 cut(s)	21
TasI	AATT	4 cut(s)	157, 414, 517, 834
TatI	WGTACW	1 cut(s)	309
TfiI	GAWTC	1 cut(s)	419
Tru1I	TTAA	1 cut(s)	156
Tru9I	TTAA	1 cut(s)	156
TseFI	GTSAC	2 cut(s)	611, 731
TseI	GCWGC	3 cut(s)	44, 524, 755
Tsp45I	GTSAC	2 cut(s)	611, 731
TspDTI	ATGAA	3 cut(s)	39, 241, 299
TspGWI	ACGGA	1 cut(s)	899
XceI	RCATGY	2 cut(s)	483, 817
XmnI	GAANNNNTTC	1 cut(s)	897
XspI	CTAG	2 cut(s)	279, 822

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.