Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0009695

Physical Location & Seq

Genomic Coordinates Forward (+)

43281259 .. 43282190

Gene Structure 932 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00422360.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 534 bp

ATGCCAATTAGCCCTGAACAAGAAGCTCTTGAAGCGCAGAAGGATGCGCAGGAAGTGCACAGGTATGCGGTATGGGGCCTCCTACCAGAGAATGCGAACACAAGGATCAAGAAGGTAATGGAGGCGCTCAGGGAAGAATTTGGTGGGCCGGAGATCGAGCCCCACATCACCATAGTCGGATCCTGCCTAATGACGGAAGATGAAGCGATCGGCTCATTTAGAGAAGGTTGTAACTCGGTCAAGCAAATCTATTGCAAAGTCGAAAACTTCGAGACTAGTAAATTCTATTTCCAGTGTCTCTTCTCTCGTCATGGAAATAACCGAGGACCTGCTATGCCACATTTGAGCCTCCTATATGGGAATTTGACAGATGAAGAGAAAAAAAGAGCTAAAGAGAAAGTTCTTGCTATGGATGAGAGCATTGCTGGACTAACATTCCTTTTAAGTAGGATGGCATTGTACAGGGTCAACTTTGCAGATAGAACTCAAAAATCCTGGGAGAGGATTCTTGAGGGCCACCTTCGAGTCAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000394 GO:0003674 GO:0003824 GO:0004112 GO:0004113 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008033 GO:0008081 GO:0008150 GO:0008152 GO:0008380 GO:0009117 GO:0009187 GO:0009987 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0019637 GO:0034470 GO:0034641 GO:0034660 GO:0042578 GO:0043170 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044464 GO:0046483 GO:0055086 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

2_5_RNA_ligase2 CPDase

Protein Analysis

177

Amino Acids

20.28

Weight (kDa)

6.0

Isoelectric Point (pI)

47.25

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0009695)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g07310 FvH4_6g07320
rosa_chinensis	RchiOBHm_Chr3g0456921 RchiOBHm_Chr3g0456931
rosa_laevigata	RLG00000025263 RLG00000025264
rosa_multiflora	Rmu_co8272005.1_g000001 Rmu_sc0000133.1_g000001 Rmu_sc0000133.1_g000002 Rmu_sc0016008.1_g000001
rosa_roxburghii	Rroxscaffold_6G00422360
rosa_rugosa	Rorug03G0017100 Rorug03G0017200 Rorug03G0017300 Rorug03G0017400
rosa_samantha	Rh3AG077200 Rh3AG077400 Rh3BG079200 Rh3BG079300 Rh3CG079100 Rh3CG079200 Rh3DG080900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	48
Acc36I	ACCTGC	1 cut(s)	337
AciI	CCGC	1 cut(s)	68
AclWI	GGATC	3 cut(s)	113, 174, 187
AcsI	RAATTY	3 cut(s)	137, 281, 361
AfaI	GTAC	1 cut(s)	461
AfiI	CCNNNNNNNGG	2 cut(s)	193, 501
AgsI	TTSAA	1 cut(s)	32
AhlI	ACTAGT	1 cut(s)	275
AjnI	CCWGG	1 cut(s)	494
AluBI	AGCT	2 cut(s)	26, 389
AluI	AGCT	2 cut(s)	26, 389
Alw21I	GWGCWC	1 cut(s)	60
Alw26I	GTCTC	2 cut(s)	266, 302
Alw44I	GTGCAC	1 cut(s)	56
AlwI	GGATC	3 cut(s)	113, 174, 187
AoxI	GGCC	3 cut(s)	76, 146, 514
ApaLI	GTGCAC	1 cut(s)	56
ApoI	RAATTY	3 cut(s)	137, 281, 361
AspLEI	GCGC	3 cut(s)	37, 49, 127
AspS9I	GGNCC	4 cut(s)	76, 146, 326, 514
AsuHPI	GGTGA	1 cut(s)	160
AvaII	GGWCC	1 cut(s)	326
BaeGI	GKGCMC	1 cut(s)	60
BamHI	GGATCC	1 cut(s)	179
BanII	GRGCYC	1 cut(s)	162
Bbv12I	GWGCWC	1 cut(s)	60
BccI	CCATC	1 cut(s)	445
BciT130I	CCWGG	1 cut(s)	496
BcoDI	GTCTC	2 cut(s)	266, 302
BcuI	ACTAGT	1 cut(s)	275
BfaI	CTAG	1 cut(s)	276
BfoI	RGCGCY	1 cut(s)	128
BfuAI	ACCTGC	1 cut(s)	337
Bme1390I	CCNGG	1 cut(s)	496
Bme18I	GGWCC	1 cut(s)	326
BmgT120I	GGNCC	4 cut(s)	76, 146, 326, 514
BmiI	GGNNCC	2 cut(s)	77, 181
BmrFI	CCNGG	1 cut(s)	496
BmsI	GCATC	1 cut(s)	34
Bpu10I	CCTNAGC	1 cut(s)	128
BpuEI	CTTGAG	1 cut(s)	530
BsaJI	CCNNGG	2 cut(s)	322, 495
Bsc4I	CCNNNNNNNGG	2 cut(s)	193, 501
Bse1I	ACTGG	1 cut(s)	292
Bse3DI	GCAATG	1 cut(s)	420
BseBI	CCWGG	1 cut(s)	496
BseDI	CCNNGG	2 cut(s)	322, 495
BseGI	GGATG	3 cut(s)	49, 418, 456
BseLI	CCNNNNNNNGG	2 cut(s)	193, 501
BseMI	GCAATG	1 cut(s)	420
BseMII	CTCAG	1 cut(s)	142
BseNI	ACTGG	1 cut(s)	292
BseSI	GKGCMC	1 cut(s)	60
Bsh1285I	CGRYCG	1 cut(s)	210
BshFI	GGCC	3 cut(s)	78, 148, 516
BsiEI	CGRYCG	1 cut(s)	210
BsiHKAI	GWGCWC	1 cut(s)	60
BsiSI	CCGG	1 cut(s)	149
BslI	CCNNNNNNNGG	2 cut(s)	193, 501
BsmAI	GTCTC	2 cut(s)	266, 302
BsmI	GAATGC	1 cut(s)	97
BsnI	GGCC	3 cut(s)	78, 148, 516
Bsp1286I	GDGCHC	2 cut(s)	60, 162
Bsp1407I	TGTACA	1 cut(s)	459
Bsp143I	GATC	4 cut(s)	105, 153, 179, 207
BspACI	CCGC	1 cut(s)	68
BspANI	GGCC	3 cut(s)	78, 148, 516
BspCNI	CTCAG	1 cut(s)	141
BspLI	GGNNCC	2 cut(s)	77, 181
BspMI	ACCTGC	1 cut(s)	337
BspPI	GGATC	3 cut(s)	113, 174, 187
BsrDI	GCAATG	1 cut(s)	420
BsrGI	TGTACA	1 cut(s)	459
BsrI	ACTGG	1 cut(s)	292
BssECI	CCNNGG	2 cut(s)	322, 495
BssMI	GATC	4 cut(s)	105, 153, 179, 207
Bst2UI	CCWGG	1 cut(s)	496
Bst6I	CTCTTC	2 cut(s)	305, 369
BstAPI	GCANNNNNTGC	1 cut(s)	55
BstAUI	TGTACA	1 cut(s)	459
BstDEI	CTNAG	1 cut(s)	128
BstENI	CCTNNNNNAGG	1 cut(s)	499
BstF5I	GGATG	3 cut(s)	49, 418, 456
BstH2I	RGCGCY	1 cut(s)	128
BstHHI	GCGC	3 cut(s)	37, 49, 127
BstKTI	GATC	4 cut(s)	108, 156, 182, 210
BstMAI	GTCTC	2 cut(s)	266, 302
BstMBI	GATC	4 cut(s)	105, 153, 179, 207
BstMCI	CGRYCG	1 cut(s)	210
BstMWI	GCNNNNNNNGC	2 cut(s)	32, 55
BstNI	CCWGG	1 cut(s)	496
BstSCI	CCNGG	1 cut(s)	494
BstSLI	GKGCMC	1 cut(s)	60
BstX2I	RGATCY	1 cut(s)	179
BstYI	RGATCY	1 cut(s)	179
BsuRI	GGCC	3 cut(s)	78, 148, 516
BtsCI	GGATG	3 cut(s)	49, 418, 456
BtsIMutI	CAGTG	1 cut(s)	299
BveI	ACCTGC	1 cut(s)	337
CfoI	GCGC	3 cut(s)	37, 49, 127
Cfr13I	GGNCC	4 cut(s)	76, 146, 326, 514
Csp6I	GTAC	1 cut(s)	460
CviAII	CATG	1 cut(s)	311
CviJI	RGCY	9 cut(s)	12, 26, 78, 148, 160, 213, 348, 389, 516
CviKI_1	RGCY	9 cut(s)	12, 26, 78, 148, 160, 213, 348, 389, 516
CviQI	GTAC	1 cut(s)	460
DdeI	CTNAG	1 cut(s)	128
DpnI	GATC	4 cut(s)	107, 155, 181, 209
DpnII	GATC	4 cut(s)	105, 153, 179, 207
Eam1104I	CTCTTC	2 cut(s)	305, 369
EarI	CTCTTC	2 cut(s)	305, 369
Eco24I	GRGCYC	1 cut(s)	162
Eco47I	GGWCC	1 cut(s)	326
EcoNI	CCTNNNNNAGG	1 cut(s)	499
EcoO109I	RGGNCCY	2 cut(s)	76, 326
EcoRII	CCWGG	1 cut(s)	494
EcoT38I	GRGCYC	1 cut(s)	162
FaeI	CATG	1 cut(s)	314
FaiI	YATR	8 cut(s)	66, 73, 173, 312, 335, 355, 357, 410
FalI	AAGNNNNNCTT	2 cut(s)	12, 44
FatI	CATG	1 cut(s)	310
FokI	GGATG	3 cut(s)	56, 425, 463
FriOI	GRGCYC	1 cut(s)	162
FspBI	CTAG	1 cut(s)	276
FspI	TGCGCA	1 cut(s)	48
GlaI	GCGC	3 cut(s)	36, 48, 126
HaeII	RGCGCY	1 cut(s)	128
HaeIII	GGCC	3 cut(s)	78, 148, 516
HapII	CCGG	1 cut(s)	149
HhaI	GCGC	3 cut(s)	37, 49, 127
Hin1II	CATG	1 cut(s)	314
Hin6I	GCGC	3 cut(s)	35, 47, 125
HinP1I	GCGC	3 cut(s)	35, 47, 125
HincII	GTYRAC	2 cut(s)	469, 529
HindII	GTYRAC	2 cut(s)	469, 529
HinfI	GANTC	2 cut(s)	505, 525
HpaII	CCGG	1 cut(s)	149
HphI	GGTGA	1 cut(s)	160
Hpy166II	GTNNAC	3 cut(s)	58, 469, 529
Hpy188I	TCNGA	1 cut(s)	179
Hpy188III	TCNNGA	4 cut(s)	29, 109, 271, 509
Hpy8I	GTNNAC	3 cut(s)	58, 469, 529
HpyAV	CCTTC	4 cut(s)	34, 106, 218, 530
HpyCH4V	TGCA	3 cut(s)	58, 255, 476
HpyF10VI	GCNNNNNNNGC	2 cut(s)	32, 55
HpyF3I	CTNAG	1 cut(s)	128
Hsp92II	CATG	1 cut(s)	314
HspAI	GCGC	3 cut(s)	35, 47, 125
Kzo9I	GATC	4 cut(s)	105, 153, 179, 207
LweI	GCATC	1 cut(s)	34
MaeI	CTAG	1 cut(s)	276
MaeIII	GTNAC	1 cut(s)	230
MalI	GATC	4 cut(s)	107, 155, 181, 209
MboI	GATC	4 cut(s)	105, 153, 179, 207
MboII	GAAGA	4 cut(s)	146, 209, 292, 386
MflI	RGATCY	1 cut(s)	179
MhlI	GDGCHC	2 cut(s)	60, 162
MluCI	AATT	4 cut(s)	6, 137, 281, 361
MlyI	GAGTC	1 cut(s)	534
MmeI	TCCRAC	1 cut(s)	157
MnlI	CCTC	6 cut(s)	89, 115, 317, 359, 495, 505
MseI	TTAA	1 cut(s)	443
MslI	CAYNNNNRTG	1 cut(s)	63
MspI	CCGG	1 cut(s)	149
MspR9I	CCNGG	1 cut(s)	496
Mva1269I	GAATGC	1 cut(s)	97
MvaI	CCWGG	1 cut(s)	496
MwoI	GCNNNNNNNGC	2 cut(s)	32, 55
NdeII	GATC	4 cut(s)	105, 153, 179, 207
NlaIII	CATG	1 cut(s)	314
NlaIV	GGNNCC	2 cut(s)	77, 181
NsbI	TGCGCA	1 cut(s)	48
PcsI	WCGNNNNNNNCGW	1 cut(s)	267
PctI	GAATGC	1 cut(s)	97
PfeI	GAWTC	1 cut(s)	505
Ple19I	CGATCG	1 cut(s)	210
PleI	GAGTC	1 cut(s)	533
PpsI	GAGTC	1 cut(s)	533
PpuMI	RGGWCCY	1 cut(s)	326
Psp5II	RGGWCCY	1 cut(s)	326
Psp6I	CCWGG	1 cut(s)	494
PspGI	CCWGG	1 cut(s)	494
PspN4I	GGNNCC	2 cut(s)	77, 181
PspPI	GGNCC	4 cut(s)	76, 146, 326, 514
PspPPI	RGGWCCY	1 cut(s)	326
PsuI	RGATCY	1 cut(s)	179
PvuI	CGATCG	1 cut(s)	210
RsaI	GTAC	1 cut(s)	461
RsaNI	GTAC	1 cut(s)	460
RseI	CAYNNNNRTG	1 cut(s)	63
SaqAI	TTAA	1 cut(s)	443
Sau3AI	GATC	4 cut(s)	105, 153, 179, 207
Sau96I	GGNCC	4 cut(s)	76, 146, 326, 514
SchI	GAGTC	1 cut(s)	534
ScrFI	CCNGG	1 cut(s)	496
SduI	GDGCHC	2 cut(s)	60, 162
SetI	ASST	7 cut(s)	28, 65, 117, 229, 331, 391, 522
SfaNI	GCATC	1 cut(s)	34
SinI	GGWCC	1 cut(s)	326
SmiMI	CAYNNNNRTG	1 cut(s)	63
SmlI	CTYRAG	1 cut(s)	509
SmoI	CTYRAG	1 cut(s)	509
SpeI	ACTAGT	1 cut(s)	275
Sse9I	AATT	4 cut(s)	6, 137, 281, 361
SsiI	CCGC	1 cut(s)	68
SspMI	CTAG	1 cut(s)	276
StyD4I	CCNGG	1 cut(s)	494
TaqI	TCGA	4 cut(s)	156, 261, 270, 523
TaqII	GACCGA	1 cut(s)	226
TasI	AATT	4 cut(s)	6, 137, 281, 361
TatI	WGTACW	1 cut(s)	459
TfiI	GAWTC	1 cut(s)	505
Tru1I	TTAA	1 cut(s)	443
Tru9I	TTAA	1 cut(s)	443
TscAI	CASTG	1 cut(s)	299
TspDTI	ATGAA	2 cut(s)	216, 387
TspGWI	ACGGA	1 cut(s)	209
TspRI	CASTG	1 cut(s)	299
VneI	GTGCAC	1 cut(s)	56
VpaK11BI	GGWCC	1 cut(s)	326
XagI	CCTNNNNNAGG	1 cut(s)	499
XapI	RAATTY	3 cut(s)	137, 281, 361
XspI	CTAG	1 cut(s)	276

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