Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0011689

Physical Location & Seq

Genomic Coordinates Forward (+)

3574537 .. 3578273

Gene Structure 3737 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00080580.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1155 bp

ATGGACTATAGCAGACCTGAGTCATCTGAAACTCTGAGGAACAAGTGTGCTGCATGCTTCAGGCAGTTCAACAAGATCGAGCACCTGGTGGAGCACATGAGAACCTCATACCACTCTTCTCATGAACCGTCGTGCGGAATCTGTAAGAAGCACTGCAGATCCTTTGAATCTCTCAGGGAACATGTCATAGGGCCATTGCCAAAACAAGAATGCAAGAACATATTTAGCAGCAGAGGATGCAAATTCTGCTTATCTGTCTTTGATAGCCCTTATACTCTAAGGCTTCACCAGGACAGATGCCAGCTCTCCAGCGTCACTGGATTAATTGGTCGGTTTGGTAACTTGGGCATTCGTGACAATCTGGATCATGGTAACTACACAAGAGGCAGTAGTGGTCAAACTGTTGCCCTTGCTTGCAAGATGGTTGGTGGGGGAAGTGATGGCTCCCTAGATCTCTGCGGTAGGGTTTGTCTCACTGATGAATATGATAACATCATCTTCCACACTTATGTCAAGCCACCAATGCCAGTCACAAACTATAGGTATGAAACAACTGGGATTCGTCCTGAATACTTGAGGGACGCAATGTCACAGAGGCAAGTGCAAAAGAAGCTACAAGACTTTTTGTGCAATGGGGAACCAATGTGGAAGATTCGACCTAGAGCCGGAAAAGCTAGAATTCTTGTGGGTCATGGTTTGGATCATGATCTCGACTCTCTGCAAATTGAATACCCAGCACTCATGATCAGGGATACTGCAAAATATCCTCCACTGATGAAAACAAGCAAGCTCAGCAACTCACTCAAGTATCTAACACAAGCATATCTCGGGTATGACATTCAAAGTGGGATTCAAGACCCTTATGAGGATTGTGTTGCAACAATGAAGCTTTACATGCGAATGAGATCCCAAGTTCACAAGATAGAGCCCTATCCACTTGCTACTGATCCGCAAAACCGAAATAATTTTGCATCGTGGCGGCAAAACGAGCTTGAAAGGATGAGCCCTGAACAAATGTTGGACATTTCCAGGTTTCAGCTGATCGATGAGTTTGATAATGAAAAGGCCATGAAGCCAAAGACTCCAATTCCCGGCGATTTACACACTCCACCACTTCCAGTAGACAAGGTTAGCAACTACTACATTACTATATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000027 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0008408 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016072 GO:0016787 GO:0016788 GO:0022607 GO:0022613 GO:0022618 GO:0034470 GO:0034622 GO:0034641 GO:0034660 GO:0042254 GO:0042255 GO:0042273 GO:0043170 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0046483 GO:0065003 GO:0070925 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0090305 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RNase_T

Protein Analysis

384

Amino Acids

44.05

Weight (kDa)

8.54

Isoelectric Point (pI)

51.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_T	PF00929	163 - 298	2.9e-06	Exonuclease

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: OG0011689)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G27970 AT5G40310 AT5G40310
fragaria_vesca	FvH4_6g50710
malus_domestica	MD00G1089900.v1.1 MD00G1186700.v1.1
prunus_persica	Prupe.3G285000_v2.0.a1 Prupe.3G285000_v2.0.a1
pyrus_communis	pycom11g21450
rosa_chinensis	RchiOBHm_Chr2g0171511
rosa_laevigata	RLG00000022021
rosa_roxburghii	Rroxscaffold_2G00080580
rosa_rugosa	Rorug02G0554800
rosa_samantha	Rh2AG629200 Rh2BG639800 Rh2CG608300 Rh2DG650600 Rh2DG656300
rosa_wichuraiana	Rw2G052120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	1122
AciI	CCGC	4 cut(s)	135, 459, 950, 979
AclWI	GGATC	5 cut(s)	153, 372, 708, 900, 941
AcsI	RAATTY	2 cut(s)	242, 678
AcuI	CTGAAG	1 cut(s)	43
AdeI	CACNNNGTG	1 cut(s)	88
AfiI	CCNNNNNNNGG	4 cut(s)	134, 665, 865, 1091
AflIII	ACRYGT	1 cut(s)	181
AgsI	TTSAA	6 cut(s)	70, 167, 728, 842, 854, 995
AhdI	GACNNNNNGTC	1 cut(s)	586
AjnI	CCWGG	3 cut(s)	84, 288, 1028
AluBI	AGCT	7 cut(s)	304, 613, 674, 790, 889, 991, 1039
AluI	AGCT	7 cut(s)	304, 613, 674, 790, 889, 991, 1039
Alw21I	GWGCWC	2 cut(s)	84, 96
Alw26I	GTCTC	1 cut(s)	476
AlwI	GGATC	5 cut(s)	153, 372, 708, 900, 941
Ama87I	CYCGRG	1 cut(s)	827
AoxI	GGCC	2 cut(s)	191, 1065
ApeKI	GCWGC	2 cut(s)	50, 228
ApoI	RAATTY	2 cut(s)	242, 678
AseI	ATTAAT	1 cut(s)	323
AspS9I	GGNCC	1 cut(s)	191
AsuC2I	CCSGG	1 cut(s)	1092
AsuHPI	GGTGA	1 cut(s)	278
AvaI	CYCGRG	1 cut(s)	827
BaeI	ACNNNNGTAYC	2 cut(s)	791, 824
BanII	GRGCYC	2 cut(s)	930, 1007
Bbv12I	GWGCWC	2 cut(s)	84, 96
BbvI	GCAGC	2 cut(s)	37, 240
BccI	CCATC	2 cut(s)	415, 434
BciT130I	CCWGG	3 cut(s)	86, 290, 1030
BciVI	GTATCC	1 cut(s)	745
BclI	TGATCA	1 cut(s)	744
BcnI	CCSGG	1 cut(s)	1092
BcoDI	GTCTC	1 cut(s)	476
BfaI	CTAG	3 cut(s)	449, 660, 675
BfmI	CTRYAG	3 cut(s)	7, 154, 538
BfuI	GTATCC	1 cut(s)	745
BglII	AGATCT	1 cut(s)	451
BisI	GCNGC	3 cut(s)	51, 229, 980
BlpI	GCTNAGC	1 cut(s)	791
BlsI	GCNGC	3 cut(s)	52, 230, 981
Bme1390I	CCNGG	4 cut(s)	86, 290, 1030, 1092
BmeRI	GACNNNNNGTC	1 cut(s)	586
BmeT110I	CYCGRG	1 cut(s)	827
BmgT120I	GGNCC	1 cut(s)	191
BmiI	GGNNCC	2 cut(s)	445, 639
BmrFI	CCNGG	4 cut(s)	86, 290, 1030, 1092
BmrI	ACTGGG	1 cut(s)	564
BmsI	GCATC	3 cut(s)	227, 287, 980
BmuI	ACTGGG	1 cut(s)	564
BoxI	GACNNNNGTC	1 cut(s)	19
BpmI	CTGGAG	1 cut(s)	292
Bpu1102I	GCTNAGC	1 cut(s)	791
BpuEI	CTTGAG	2 cut(s)	595, 788
BpuMI	CCSGG	1 cut(s)	1092
Bsa29I	ATCGAT	1 cut(s)	1044
BsaBI	GATNNNNATC	1 cut(s)	705
Bsc4I	CCNNNNNNNGG	4 cut(s)	134, 665, 865, 1091
Bse1I	ACTGG	4 cut(s)	322, 527, 559, 1118
Bse3DI	GCAATG	3 cut(s)	194, 591, 637
Bse8I	GATNNNNATC	1 cut(s)	705
BseBI	CCWGG	3 cut(s)	86, 290, 1030
BseCI	ATCGAT	1 cut(s)	1044
BseGI	GGATG	2 cut(s)	242, 1005
BseJI	GATNNNNATC	1 cut(s)	705
BseLI	CCNNNNNNNGG	4 cut(s)	134, 665, 865, 1091
BseMI	GCAATG	3 cut(s)	194, 591, 637
BseMII	CTCAG	4 cut(s)	9, 26, 187, 805
BseNI	ACTGG	4 cut(s)	322, 527, 559, 1118
BseXI	GCAGC	2 cut(s)	37, 240
BseYI	CCCAGC	1 cut(s)	733
BshFI	GGCC	2 cut(s)	193, 1067
BshVI	ATCGAT	1 cut(s)	1044
BsiHKAI	GWGCWC	2 cut(s)	84, 96
BsiHKCI	CYCGRG	1 cut(s)	827
BsiSI	CCGG	2 cut(s)	666, 1092
BslFI	GGGAC	1 cut(s)	593
BslI	CCNNNNNNNGG	4 cut(s)	134, 665, 865, 1091
BsmAI	GTCTC	1 cut(s)	476
BsmFI	GGGAC	1 cut(s)	593
BsmI	GAATGC	2 cut(s)	215, 348
BsnI	GGCC	2 cut(s)	193, 1067
BsoBI	CYCGRG	1 cut(s)	827
Bsp1286I	GDGCHC	4 cut(s)	84, 96, 930, 1007
Bsp1720I	GCTNAGC	1 cut(s)	791
BspACI	CCGC	4 cut(s)	135, 459, 950, 979
BspANI	GGCC	2 cut(s)	193, 1067
BspCNI	CTCAG	4 cut(s)	10, 27, 186, 804
BspDI	ATCGAT	1 cut(s)	1044
BspHI	TCATGA	3 cut(s)	121, 703, 741
BspLI	GGNNCC	2 cut(s)	445, 639
BspMAI	CTGCAG	1 cut(s)	158
BspPI	GGATC	5 cut(s)	153, 372, 708, 900, 941
BsrDI	GCAATG	3 cut(s)	194, 591, 637
BsrI	ACTGG	4 cut(s)	322, 527, 559, 1118
Bst2UI	CCWGG	3 cut(s)	86, 290, 1030
Bst4CI	ACNGT	2 cut(s)	129, 403
Bst6I	CTCTTC	1 cut(s)	121
BstAPI	GCANNNNNTGC	2 cut(s)	237, 246
BstC8I	GCNNGC	4 cut(s)	55, 302, 415, 788
BstDEI	CTNAG	5 cut(s)	18, 35, 173, 278, 791
BstF5I	GGATG	2 cut(s)	242, 1005
BstMAI	GTCTC	1 cut(s)	476
BstMWI	GCNNNNNNNGC	8 cut(s)	237, 246, 523, 610, 671, 792, 895, 988
BstNI	CCWGG	3 cut(s)	86, 290, 1030
BstNSI	RCATGY	3 cut(s)	57, 185, 898
BstPAI	GACNNNNGTC	1 cut(s)	19
BstSCI	CCNGG	4 cut(s)	84, 288, 1028, 1090
BstSFI	CTRYAG	3 cut(s)	7, 154, 538
BstV1I	GCAGC	2 cut(s)	37, 240
BstX2I	RGATCY	3 cut(s)	158, 451, 905
BstYI	RGATCY	3 cut(s)	158, 451, 905
Bsu15I	ATCGAT	1 cut(s)	1044
BsuI	GTATCC	1 cut(s)	745
BsuRI	GGCC	2 cut(s)	193, 1067
BsuTUI	ATCGAT	1 cut(s)	1044
BtsCI	GGATG	2 cut(s)	242, 1005
BtsI	GCAGTG	1 cut(s)	151
BtsIMutI	CAGTG	4 cut(s)	151, 315, 474, 770
Cac8I	GCNNGC	4 cut(s)	55, 302, 415, 788
CciI	TCATGA	3 cut(s)	121, 703, 741
Cfr13I	GGNCC	1 cut(s)	191
ClaI	ATCGAT	1 cut(s)	1044
CseI	GACGC	2 cut(s)	301, 590
CsiI	ACCWGGT	1 cut(s)	84
DdeI	CTNAG	5 cut(s)	18, 35, 173, 278, 791
DraIII	CACNNNGTG	1 cut(s)	88
DriI	GACNNNNNGTC	1 cut(s)	586
Eam1104I	CTCTTC	1 cut(s)	121
Eam1105I	GACNNNNNGTC	1 cut(s)	586
EarI	CTCTTC	1 cut(s)	121
Eco24I	GRGCYC	2 cut(s)	930, 1007
Eco57I	CTGAAG	1 cut(s)	43
Eco88I	CYCGRG	1 cut(s)	827
EcoRI	GAATTC	1 cut(s)	678
EcoRII	CCWGG	3 cut(s)	84, 288, 1028
EcoT38I	GRGCYC	2 cut(s)	930, 1007
FaqI	GGGAC	1 cut(s)	593
FbaI	TGATCA	1 cut(s)	744
FblI	GTMKAC	1 cut(s)	1122
Fnu4HI	GCNGC	3 cut(s)	51, 229, 980
FokI	GGATG	2 cut(s)	249, 1012
FriOI	GRGCYC	2 cut(s)	930, 1007
Fsp4HI	GCNGC	3 cut(s)	51, 229, 980
FspBI	CTAG	3 cut(s)	449, 660, 675
GluI	GCNGC	3 cut(s)	51, 229, 980
GsaI	CCCAGC	1 cut(s)	737
GsuI	CTGGAG	1 cut(s)	292
HaeIII	GGCC	2 cut(s)	193, 1067
HapII	CCGG	2 cut(s)	666, 1092
HgaI	GACGC	2 cut(s)	301, 590
HindIII	AAGCTT	1 cut(s)	887
HinfI	GANTC	8 cut(s)	20, 138, 167, 559, 652, 713, 850, 1081
HpaII	CCGG	2 cut(s)	666, 1092
HphI	GGTGA	1 cut(s)	278
Hpy166II	GTNNAC	2 cut(s)	916, 1123
Hpy188I	TCNGA	2 cut(s)	28, 36
Hpy188III	TCNNGA	8 cut(s)	122, 353, 362, 566, 704, 710, 742, 854
Hpy8I	GTNNAC	2 cut(s)	916, 1123
Hpy99I	CGWCG	1 cut(s)	133
HpyCH4III	ACNGT	2 cut(s)	129, 403
HpyF10VI	GCNNNNNNNGC	8 cut(s)	237, 246, 523, 610, 671, 792, 895, 988
HpyF3I	CTNAG	5 cut(s)	18, 35, 173, 278, 791
Ksp22I	TGATCA	1 cut(s)	744
LmnI	GCTCC	2 cut(s)	91, 449
Lsp1109I	GCAGC	2 cut(s)	37, 240
LweI	GCATC	3 cut(s)	227, 287, 980
MabI	ACCWGGT	1 cut(s)	84
MaeI	CTAG	3 cut(s)	449, 660, 675
MaeIII	GTNAC	6 cut(s)	313, 338, 353, 371, 529, 588
MboII	GAAGA	3 cut(s)	108, 490, 661
MflI	RGATCY	3 cut(s)	158, 451, 905
MhlI	GDGCHC	4 cut(s)	84, 96, 930, 1007
MluCI	AATT	6 cut(s)	242, 324, 678, 723, 964, 1086
MlyI	GAGTC	3 cut(s)	29, 707, 1075
MmeI	TCCRAC	1 cut(s)	999
MnlI	CCTC	8 cut(s)	30, 115, 227, 377, 570, 588, 777, 859
MseI	TTAA	1 cut(s)	323
MslI	CAYNNNNRTG	2 cut(s)	507, 899
MspA1I	CMGCKG	1 cut(s)	1039
MspI	CCGG	2 cut(s)	666, 1092
MspR9I	CCNGG	4 cut(s)	86, 290, 1030, 1092
Mva1269I	GAATGC	2 cut(s)	215, 348
MvaI	CCWGG	3 cut(s)	86, 290, 1030
MwoI	GCNNNNNNNGC	8 cut(s)	237, 246, 523, 610, 671, 792, 895, 988
NciI	CCSGG	1 cut(s)	1092
NlaIV	GGNNCC	2 cut(s)	445, 639
NmuCI	GTSAC	4 cut(s)	313, 353, 529, 588
NspI	RCATGY	3 cut(s)	57, 185, 898
PaeI	GCATGC	1 cut(s)	57
PagI	TCATGA	3 cut(s)	121, 703, 741
PciI	ACATGT	1 cut(s)	181
PctI	GAATGC	2 cut(s)	215, 348
PfeI	GAWTC	5 cut(s)	138, 167, 559, 652, 850
PkrI	GCNGC	3 cut(s)	52, 230, 981
PleI	GAGTC	3 cut(s)	28, 707, 1075
PpsI	GAGTC	3 cut(s)	28, 707, 1075
PscI	ACATGT	1 cut(s)	181
PshAI	GACNNNNGTC	1 cut(s)	19
PshBI	ATTAAT	1 cut(s)	323
Psp6I	CCWGG	3 cut(s)	84, 288, 1028
PspFI	CCCAGC	1 cut(s)	733
PspGI	CCWGG	3 cut(s)	84, 288, 1028
PspN4I	GGNNCC	2 cut(s)	445, 639
PspPI	GGNCC	1 cut(s)	191
PstI	CTGCAG	1 cut(s)	158
PsuI	RGATCY	3 cut(s)	158, 451, 905
PvuII	CAGCTG	1 cut(s)	1039
RseI	CAYNNNNRTG	2 cut(s)	507, 899
SaqAI	TTAA	1 cut(s)	323
SatI	GCNGC	3 cut(s)	51, 229, 980
Sau96I	GGNCC	1 cut(s)	191
SchI	GAGTC	3 cut(s)	29, 707, 1075
ScrFI	CCNGG	4 cut(s)	86, 290, 1030, 1092
SduI	GDGCHC	4 cut(s)	84, 96, 930, 1007
SexAI	ACCWGGT	1 cut(s)	84
SfaNI	GCATC	3 cut(s)	227, 287, 980
SfcI	CTRYAG	3 cut(s)	7, 154, 538
SmiMI	CAYNNNNRTG	2 cut(s)	507, 899
SmlI	CTYRAG	2 cut(s)	574, 803
SmoI	CTYRAG	2 cut(s)	574, 803
SphI	GCATGC	1 cut(s)	57
Sse9I	AATT	6 cut(s)	242, 324, 678, 723, 964, 1086
SsiI	CCGC	4 cut(s)	135, 459, 950, 979
SspMI	CTAG	3 cut(s)	449, 660, 675
StyD4I	CCNGG	4 cut(s)	84, 288, 1028, 1090
TaaI	ACNGT	2 cut(s)	129, 403
TaqI	TCGA	4 cut(s)	78, 655, 711, 1044
TasI	AATT	6 cut(s)	242, 324, 678, 723, 964, 1086
TauI	GCSGC	1 cut(s)	982
TfiI	GAWTC	5 cut(s)	138, 167, 559, 652, 850
Tru1I	TTAA	1 cut(s)	323
Tru9I	TTAA	1 cut(s)	323
TscAI	CASTG	4 cut(s)	158, 322, 481, 777
TseFI	GTSAC	4 cut(s)	313, 353, 529, 588
TseI	GCWGC	2 cut(s)	50, 228
Tsp45I	GTSAC	4 cut(s)	313, 353, 529, 588
TspDTI	ATGAA	7 cut(s)	138, 495, 561, 791, 899, 1074, 1085
TspRI	CASTG	4 cut(s)	158, 322, 481, 777
VspI	ATTAAT	1 cut(s)	323
XapI	RAATTY	2 cut(s)	242, 678
XceI	RCATGY	3 cut(s)	57, 185, 898
XmiI	GTMKAC	1 cut(s)	1122
XspI	CTAG	3 cut(s)	449, 660, 675

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