Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0003855

Physical Location & Seq

Genomic Coordinates Reverse (-)

6153807 .. 6157389

Gene Structure 3583 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG079200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1053 bp

ATGAGAACCTTTTCTTTATCAAGAGTTCCCAGATGTGGACTTTATAACTTAGCTCAATTTTGGGGTGACAACTTCCACAGTTCGATTAGGACTTGTGGATACAGTTCTAGTTCTAAGCTGCATAGTTTCAAAATTTATGCGCTTGATGGAGGAAACAGTAGGAAATGGACTAGAAGGCCTCTAACAACAAATACAGAAGGAAGAAGCAAAACTGCCCGACACAGCAATCCCAGCAAGATTAGGCAGGAATTGTTGGATGTAACAGTTTCAACAAGTGCTACATTAAATATAAGTAAAATTGATGCAAGTCAATATGAAAAGATTCAACACCAGGACATTCGAGAATTGATAGCTGAGAATGAAGATTTAGCCAATCTAGTGACAGTTATCGTATTTGATATTGAGACTACTGGGTTTAGTAGAACAGATGATCGAATCATAGAGATTGCACTTCAAGATCTTCAAGGAGGTCAAAACAGTACTTTCCAGACACTGATAAACCCTGAACGTGATGTTCCATGGAATACAACCAAAATTCATGGAATTTCAACAGATATGGTCAACAAACCTGGTGTTCCAAGGATGAAGGAACTTATACCAATCTTACTCAGCTATATTAAAAGCCGTCAAAAGCCGGGTGGTTATGTAATGTTGGTTGCTCACAATGGTCGTAGTTTTGATGTGCCCTTTCTCCGAAGTGAATTCTGTCGTTGGGGCGTAGAGTTTCCTTCAAACTGGCTGTTTGCAGACAGCCTTATTATGGCACGGAAAGCAATGAAGTCTACAGGTCTGTTTGTGGGTGAGCGGGCGTGTGTACTTATGCTCATGCTTGGCATGTATTGTTGTCAATGGGATACTAAAGCCTTCATGTTTACTCTGTGCAGGATCAGAAGCTTCTTCAAAATCATTAAAATTGCAAGACCTTCGTGCTCACCTTGGGATCCCATTGGTTGGTTCAGCTCACAGAGCCATGTCAGATGTGGTGGTGTTGTCAAAAGTGTTTCCCATATTAACTTATATTCTGAAACAGACACTAGCCAACGTCGTCGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000738 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006259 GO:0006308 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009536 GO:0009987 GO:0016787 GO:0016788 GO:0019439 GO:0034641 GO:0034655 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0046700 GO:0071704 GO:0090304 GO:0090305 GO:1901360 GO:1901361 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RNase_T

Protein Analysis

350

Amino Acids

39.89

Weight (kDa)

9.55

Isoelectric Point (pI)

47.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_T	PF00929	130 - 261	5.1e-17	Exonuclease

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003855)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G26940 AT5G26940 AT5G26940 AT5G26940
fragaria_vesca	FvH4_4g19220 FvH4_6g07110 FvH4_6g07110
malus_domestica	MD12G1208900.v1.1 MD12G1209000.v1.1 MD13G1159900.v1.1
prunus_persica	Prupe.1G126500_v2.0.a1 Prupe.1G126500_v2.0.a1 Prupe.6G316100_v2.0.a1 Prupe.6G316100_v2.0.a1 Prupe.6G316100_v2.0.a1
pyrus_communis	pycom12g19620 pycom13g13620
rosa_chinensis	RchiOBHm_Chr3g0456691 RchiOBHm_Chr4g0424201
rosa_laevigata	RLG00000007497 RLG00000025283
rosa_roxburghii	Rroxscaffold_11G00450390 Rroxscaffold_6G00422530
rosa_rugosa	Rorug03G0015100 Rorug04G0193700
rosa_samantha	Rh3AG075600 Rh3BG077500 Rh3CG077300 Rh3DG079200 Rh4AG251500 Rh4CG267500 Rh4DG251300
rosa_wichuraiana	Rw3G006480 Rw4G021690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	45
AccB7I	CCANNNNNTGG	1 cut(s)	951
AccBSI	CCGCTC	1 cut(s)	805
AccI	GTMKAC	1 cut(s)	782
AciI	CCGC	1 cut(s)	805
AclWI	GGATC	3 cut(s)	893, 935, 948
AcsI	RAATTY	4 cut(s)	132, 534, 543, 701
AfaI	GTAC	2 cut(s)	481, 816
AfiI	CCNNNNNNNGG	3 cut(s)	35, 760, 951
AgsI	TTSAA	8 cut(s)	130, 270, 326, 455, 464, 549, 732, 901
AjnI	CCWGG	2 cut(s)	330, 568
AluBI	AGCT	6 cut(s)	53, 118, 353, 612, 894, 960
AluI	AGCT	6 cut(s)	53, 118, 353, 612, 894, 960
Alw21I	GWGCWC	1 cut(s)	932
Alw26I	GTCTC	1 cut(s)	398
AlwI	GGATC	3 cut(s)	893, 935, 948
AlwNI	CAGNNNCTG	1 cut(s)	493
AoxI	GGCC	1 cut(s)	176
ApeKI	GCWGC	1 cut(s)	118
ApoI	RAATTY	4 cut(s)	132, 534, 543, 701
Asp700I	GAANNNNTTC	2 cut(s)	10, 321
AspLEI	GCGC	1 cut(s)	142
AsuC2I	CCSGG	1 cut(s)	636
AsuHPI	GGTGA	3 cut(s)	77, 812, 924
BaeGI	GKGCMC	1 cut(s)	687
BamHI	GGATCC	1 cut(s)	940
Bbv12I	GWGCWC	1 cut(s)	932
BbvI	GCAGC	1 cut(s)	105
BccI	CCATC	1 cut(s)	140
BceAI	ACGGC	1 cut(s)	609
BcgI	CGANNNNNNTGC	2 cut(s)	906, 940
BciT130I	CCWGG	2 cut(s)	332, 570
BciVI	GTATCC	2 cut(s)	92, 847
BcnI	CCSGG	1 cut(s)	636
BcoDI	GTCTC	1 cut(s)	398
BfaI	CTAG	4 cut(s)	108, 171, 377, 1035
BfmI	CTRYAG	1 cut(s)	783
BfuI	GTATCC	2 cut(s)	92, 847
BglII	AGATCT	1 cut(s)	457
BisI	GCNGC	1 cut(s)	119
BlsI	GCNGC	1 cut(s)	120
BmcAI	AGTACT	1 cut(s)	481
Bme1390I	CCNGG	3 cut(s)	332, 570, 636
BmiI	GGNNCC	1 cut(s)	942
BmrFI	CCNGG	3 cut(s)	332, 570, 636
BmrI	ACTGGG	1 cut(s)	420
BmsI	GCATC	1 cut(s)	292
BmuI	ACTGGG	1 cut(s)	420
BpuMI	CCSGG	1 cut(s)	636
BsaJI	CCNNGG	3 cut(s)	518, 578, 935
Bsc4I	CCNNNNNNNGG	3 cut(s)	35, 760, 951
Bse1I	ACTGG	2 cut(s)	415, 740
Bse3DI	GCAATG	1 cut(s)	780
BseBI	CCWGG	2 cut(s)	332, 570
BseDI	CCNNGG	3 cut(s)	518, 578, 935
BseGI	GGATG	2 cut(s)	262, 588
BseLI	CCNNNNNNNGG	3 cut(s)	35, 760, 951
BseMI	GCAATG	1 cut(s)	780
BseMII	CTCAG	2 cut(s)	345, 622
BseNI	ACTGG	2 cut(s)	415, 740
BseSI	GKGCMC	1 cut(s)	687
BseXI	GCAGC	1 cut(s)	105
BseYI	CCCAGC	1 cut(s)	230
BsgI	GTGCAG	1 cut(s)	901
BshFI	GGCC	1 cut(s)	178
BsiHKAI	GWGCWC	1 cut(s)	932
BsiSI	CCGG	1 cut(s)	635
BslI	CCNNNNNNNGG	3 cut(s)	35, 760, 951
BsmAI	GTCTC	1 cut(s)	398
BsnI	GGCC	1 cut(s)	178
Bsp1286I	GDGCHC	2 cut(s)	687, 932
Bsp143I	GATC	4 cut(s)	430, 457, 885, 940
Bsp19I	CCATGG	1 cut(s)	518
BspACI	CCGC	1 cut(s)	805
BspANI	GGCC	1 cut(s)	178
BspCNI	CTCAG	2 cut(s)	346, 621
BspLI	GGNNCC	1 cut(s)	942
BspPI	GGATC	3 cut(s)	893, 935, 948
BsrBI	CCGCTC	1 cut(s)	805
BsrDI	GCAATG	1 cut(s)	780
BsrI	ACTGG	2 cut(s)	415, 740
BssECI	CCNNGG	3 cut(s)	518, 578, 935
BssMI	GATC	4 cut(s)	430, 457, 885, 940
BssT1I	CCWWGG	3 cut(s)	518, 578, 935
Bst2UI	CCWGG	2 cut(s)	332, 570
Bst4CI	ACNGT	6 cut(s)	80, 104, 158, 265, 385, 479
BstC8I	GCNNGC	1 cut(s)	807
BstDEI	CTNAG	4 cut(s)	49, 114, 354, 608
BstDSI	CCRYGG	1 cut(s)	518
BstF5I	GGATG	2 cut(s)	262, 588
BstHHI	GCGC	1 cut(s)	142
BstKTI	GATC	4 cut(s)	433, 460, 888, 943
BstMAI	GTCTC	1 cut(s)	398
BstMBI	GATC	4 cut(s)	430, 457, 885, 940
BstMWI	GCNNNNNNNGC	3 cut(s)	231, 770, 966
BstNI	CCWGG	2 cut(s)	332, 570
BstNSI	RCATGY	1 cut(s)	838
BstSCI	CCNGG	3 cut(s)	330, 568, 634
BstSFI	CTRYAG	1 cut(s)	783
BstSLI	GKGCMC	1 cut(s)	687
BstV1I	GCAGC	1 cut(s)	105
BstX2I	RGATCY	2 cut(s)	457, 940
BstYI	RGATCY	2 cut(s)	457, 940
BsuI	GTATCC	2 cut(s)	92, 847
BsuRI	GGCC	1 cut(s)	178
BtgI	CCRYGG	1 cut(s)	518
BtsCI	GGATG	2 cut(s)	262, 588
BtsIMutI	CAGTG	1 cut(s)	491
Cac8I	GCNNGC	1 cut(s)	807
CaiI	CAGNNNCTG	1 cut(s)	493
CfoI	GCGC	1 cut(s)	142
CsiI	ACCWGGT	1 cut(s)	568
Csp6I	GTAC	2 cut(s)	480, 815
CviAII	CATG	6 cut(s)	519, 539, 826, 835, 868, 971
CviQI	GTAC	2 cut(s)	480, 815
DdeI	CTNAG	4 cut(s)	49, 114, 354, 608
DpnI	GATC	4 cut(s)	432, 459, 887, 942
DpnII	GATC	4 cut(s)	430, 457, 885, 940
Eco130I	CCWWGG	3 cut(s)	518, 578, 935
Eco147I	AGGCCT	1 cut(s)	178
EcoRI	GAATTC	1 cut(s)	701
EcoRII	CCWGG	2 cut(s)	330, 568
EcoT14I	CCWWGG	3 cut(s)	518, 578, 935
ErhI	CCWWGG	3 cut(s)	518, 578, 935
FaeI	CATG	6 cut(s)	522, 542, 829, 838, 871, 974
FatI	CATG	6 cut(s)	518, 538, 825, 834, 867, 970
FauI	CCCGC	1 cut(s)	798
FblI	GTMKAC	1 cut(s)	782
Fnu4HI	GCNGC	1 cut(s)	119
FokI	GGATG	2 cut(s)	269, 595
Fsp4HI	GCNGC	1 cut(s)	119
FspBI	CTAG	4 cut(s)	108, 171, 377, 1035
GlaI	GCGC	1 cut(s)	141
GluI	GCNGC	1 cut(s)	119
GsaI	CCCAGC	1 cut(s)	234
HaeIII	GGCC	1 cut(s)	178
HapII	CCGG	1 cut(s)	635
HhaI	GCGC	1 cut(s)	142
Hin1II	CATG	6 cut(s)	522, 542, 829, 838, 871, 974
Hin6I	GCGC	1 cut(s)	140
HinP1I	GCGC	1 cut(s)	140
HincII	GTYRAC	1 cut(s)	562
HindII	GTYRAC	1 cut(s)	562
HindIII	AAGCTT	1 cut(s)	892
HinfI	GANTC	2 cut(s)	322, 435
HpaII	CCGG	1 cut(s)	635
HphI	GGTGA	3 cut(s)	77, 812, 924
Hpy166II	GTNNAC	5 cut(s)	38, 562, 783, 815, 873
Hpy188I	TCNGA	4 cut(s)	695, 890, 977, 1024
Hpy188III	TCNNGA	4 cut(s)	21, 341, 455, 487
Hpy8I	GTNNAC	5 cut(s)	38, 562, 783, 815, 873
Hpy99I	CGWCG	2 cut(s)	1047, 1050
HpyAV	CCTTC	6 cut(s)	168, 191, 580, 738, 874, 933
HpyCH4III	ACNGT	6 cut(s)	80, 104, 158, 265, 385, 479
HpyCH4IV	ACGT	2 cut(s)	508, 1042
HpyCH4V	TGCA	6 cut(s)	121, 305, 449, 746, 882, 917
HpyF10VI	GCNNNNNNNGC	3 cut(s)	231, 770, 966
HpyF3I	CTNAG	4 cut(s)	49, 114, 354, 608
HpySE526I	ACGT	2 cut(s)	508, 1042
Hsp92II	CATG	6 cut(s)	522, 542, 829, 838, 871, 974
HspAI	GCGC	1 cut(s)	140
Kzo9I	GATC	4 cut(s)	430, 457, 885, 940
Lsp1109I	GCAGC	1 cut(s)	105
LweI	GCATC	1 cut(s)	292
MabI	ACCWGGT	1 cut(s)	568
MaeI	CTAG	4 cut(s)	108, 171, 377, 1035
MaeII	ACGT	2 cut(s)	508, 1042
MaeIII	GTNAC	3 cut(s)	65, 259, 379
MalI	GATC	4 cut(s)	432, 459, 887, 942
MbiI	CCGCTC	1 cut(s)	805
MboI	GATC	4 cut(s)	430, 457, 885, 940
MboII	GAAGA	4 cut(s)	213, 374, 452, 889
MflI	RGATCY	2 cut(s)	457, 940
MhlI	GDGCHC	2 cut(s)	687, 932
MluCI	AATT	9 cut(s)	56, 132, 248, 297, 344, 534, 543, 701, 912
MmeI	TCCRAC	1 cut(s)	234
MnlI	CCTC	3 cut(s)	143, 189, 461
MroXI	GAANNNNTTC	2 cut(s)	10, 321
MseI	TTAA	4 cut(s)	284, 618, 909, 1011
MspI	CCGG	1 cut(s)	635
MspR9I	CCNGG	3 cut(s)	332, 570, 636
MvaI	CCWGG	2 cut(s)	332, 570
MwoI	GCNNNNNNNGC	3 cut(s)	231, 770, 966
NciI	CCSGG	1 cut(s)	636
NcoI	CCATGG	1 cut(s)	518
NdeII	GATC	4 cut(s)	430, 457, 885, 940
NlaIII	CATG	6 cut(s)	522, 542, 829, 838, 871, 974
NlaIV	GGNNCC	1 cut(s)	942
NmuCI	GTSAC	2 cut(s)	65, 379
NspI	RCATGY	1 cut(s)	838
PceI	AGGCCT	1 cut(s)	178
PdmI	GAANNNNTTC	2 cut(s)	10, 321
PfeI	GAWTC	2 cut(s)	322, 435
PflMI	CCANNNNNTGG	1 cut(s)	951
PkrI	GCNGC	1 cut(s)	120
PsiI	TTATAA	1 cut(s)	45
Psp6I	CCWGG	2 cut(s)	330, 568
PspFI	CCCAGC	1 cut(s)	230
PspGI	CCWGG	2 cut(s)	330, 568
PspN4I	GGNNCC	1 cut(s)	942
PstNI	CAGNNNCTG	1 cut(s)	493
PsuI	RGATCY	2 cut(s)	457, 940
RsaI	GTAC	2 cut(s)	481, 816
RsaNI	GTAC	2 cut(s)	480, 815
SaqAI	TTAA	4 cut(s)	284, 618, 909, 1011
SatI	GCNGC	1 cut(s)	119
Sau3AI	GATC	4 cut(s)	430, 457, 885, 940
ScaI	AGTACT	1 cut(s)	481
ScrFI	CCNGG	3 cut(s)	332, 570, 636
SduI	GDGCHC	2 cut(s)	687, 932
SexAI	ACCWGGT	1 cut(s)	568
SfaNI	GCATC	1 cut(s)	292
SfcI	CTRYAG	1 cut(s)	783
Sse9I	AATT	9 cut(s)	56, 132, 248, 297, 344, 534, 543, 701, 912
SseBI	AGGCCT	1 cut(s)	178
SsiI	CCGC	1 cut(s)	805
SspMI	CTAG	4 cut(s)	108, 171, 377, 1035
StuI	AGGCCT	1 cut(s)	178
StyD4I	CCNGG	3 cut(s)	330, 568, 634
StyI	CCWWGG	3 cut(s)	518, 578, 935
TaaI	ACNGT	6 cut(s)	80, 104, 158, 265, 385, 479
TaiI	ACGT	2 cut(s)	511, 1045
TaqI	TCGA	3 cut(s)	83, 340, 433
TasI	AATT	9 cut(s)	56, 132, 248, 297, 344, 534, 543, 701, 912
TatI	WGTACW	2 cut(s)	479, 814
TfiI	GAWTC	2 cut(s)	322, 435
Tru1I	TTAA	4 cut(s)	284, 618, 909, 1011
Tru9I	TTAA	4 cut(s)	284, 618, 909, 1011
TscAI	CASTG	1 cut(s)	498
TseFI	GTSAC	2 cut(s)	65, 379
TseI	GCWGC	1 cut(s)	118
Tsp45I	GTSAC	2 cut(s)	65, 379
TspDTI	ATGAA	6 cut(s)	330, 375, 527, 599, 791, 856
TspGWI	ACGGA	1 cut(s)	781
TspRI	CASTG	1 cut(s)	498
Van91I	CCANNNNNTGG	1 cut(s)	951
XapI	RAATTY	4 cut(s)	132, 534, 543, 701
XceI	RCATGY	1 cut(s)	838
XcmI	CCANNNNNNNNNTGG	1 cut(s)	977
XmiI	GTMKAC	1 cut(s)	782
XmnI	GAANNNNTTC	2 cut(s)	10, 321
XspI	CTAG	4 cut(s)	108, 171, 377, 1035
ZrmI	AGTACT	1 cut(s)	481

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