Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0012094

Physical Location & Seq

Genomic Coordinates Forward (+)

35007206 .. 35014265

Gene Structure 7060 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00412430.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1239 bp

ATGGCGGAAGGCGCTTCATTTTTGTTCGGCGGCATTCACTTCAACCGGAGAAAGTTCGCCACTGACTTTTCCCGATTCGAGGCCAAAAAGAAAGAGATAAACGCTTCGAGCCTGGTCGAAGTTGCAGAACCTGAACCAGAAGAAGAAGAGGAGGAGGAGGAGGAAGAGCCAGTAGTAGCAGTTTCTGTTAAGAAAAGGAAGAGGAAGACGGAGGCTTCAGAGTCTGGGGATGGAATCAGTCTTTTCAAGACGTCAAAATCAGCAAAGGCAGCTAAGAAAGATAAAGAGAAGCCTGCGAATGAACGCGCCAAGCAGAAGAAGAAATTAAATAGACAACTTGAGCGGGATTCGATAATTCGAAAGAAGCATAATGTGCATGTGTCTGGGAATAATATCCCATCCCCTCTTGAGAATTTTTTCGGAGTTAAGATCAAGATGATGAATTGGGTCGGGGAATGCTTTGCTTGTGCTCCAACTGGGTCTGGGAAAACCCTTGCTTTTGTGGTTCCCATGCTTATGAAACTTAAGCACGCATCTAAGGGTGGCATTCGAGCTGTGATTCTTTGTCCTACACGTGAATTAGCTGCTCAGACAACCAGAGAGGTGGAATATCTTGTCTTGGATGAGTCTGATAAGCTCTTTGAGCTTGGCCTGTTAAAGCAGATTGATTCTGTGGTGAAAGCATGCTCAAACCCTTCAATAGTTCGCTCTTTGTTTAGTGCTACTTTACCTGATTTTGTTGAGGAGCTTGCACGTACTATAATGCATGATGCTGTTCGAGTTATCATTGGCAGGAAAAATACTGCTTCTGAGACTATTAAGCAAAAATTGGTATATGCTGGAAGTGAACAGGGGGAAATTTCTAGCACTTCGACAGAGCTTTACAGAGAAAATGCTGTTGACGACTTCAGAGCTGGAAAAACATGGGTTTTGATTGCCACTGATGTTATTGCTCGGGGTATGGATTTCAAAGGCATCAACTGTGTTATTAATTATGATTTTCCAGATTCTTCGGCTGCCTACATTCACCGGATTGGTCGCTGTGGAAGAGCGGGAAGGAGTGGAGAAGCTATTACTTTCTACACAGATGAAGATATTCCATTTTTACGGAATATAGCTAATGTTATGGCATCATCAGGTTGTGAGGTTCCATCTTGGATCATGGTCTTGCCCAAAAAAGAAGTGGAGAAAGCACAGACCTGGAAGAGGAGGATCGGTATTAGCCGGACCGAAAGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009987 GO:0010467 GO:0010501 GO:0016070 GO:0016072 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022613 GO:0031974 GO:0031981 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0070035 GO:0071704 GO:0071840 GO:0090304 GO:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

412

Amino Acids

45.99

Weight (kDa)

9.03

Isoelectric Point (pI)

47.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	152 - 202	4.8e-14	DEAD/DEAH box helicase
Helicase_C	PF00271	260 - 352	2.6e-21	Helicase conserved C-terminal 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: OG0012094)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G09720 AT3G09720
fragaria_vesca	FvH4_6g15470
malus_domestica	MD04G1103000.v1.1 MD12G1123200.v1.1
prunus_persica	Prupe.6G240000_v2.0.a1 Prupe.6G240000_v2.0.a1
pyrus_communis	pycom04g09810 pycom12g12190
rosa_chinensis	RchiOBHm_Chr3g0468951
rosa_laevigata	RLG00000024397
rosa_multiflora	Rmu_co8069278.1_g000001 Rmu_co8291353.1_g000001
rosa_roxburghii	Rroxscaffold_6G00412430
rosa_rugosa	Rorug03G0097800
rosa_samantha	Rh3AG147400 Rh3BG170000 Rh3DG205000
rosa_wichuraiana	Rw3G013880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	254
AccBSI	CCGCTC	2 cut(s)	343, 1052
AccII	CGCG	1 cut(s)	306
AciI	CCGC	4 cut(s)	5, 30, 343, 1052
AclWI	GGATC	2 cut(s)	1166, 1220
AcsI	RAATTY	2 cut(s)	412, 858
AcuI	CTGAAG	2 cut(s)	201, 892
AcvI	CACGTG	1 cut(s)	575
AcyI	GRCGYC	1 cut(s)	251
AfaI	GTAC	1 cut(s)	757
AfiI	CCNNNNNNNGG	2 cut(s)	79, 1206
AflII	CTTAAG	1 cut(s)	524
AflIII	ACRYGT	1 cut(s)	572
AgsI	TTSAA	4 cut(s)	43, 247, 699, 970
AjnI	CCWGG	2 cut(s)	111, 1199
Alw21I	GWGCWC	1 cut(s)	472
Alw26I	GTCTC	1 cut(s)	806
AlwI	GGATC	2 cut(s)	1166, 1220
AlwNI	CAGNNNCTG	3 cut(s)	131, 185, 224
Ama87I	CYCGRG	1 cut(s)	954
AoxI	GGCC	2 cut(s)	81, 649
ApeKI	GCWGC	3 cut(s)	269, 584, 1016
ApoI	RAATTY	2 cut(s)	412, 858
AseI	ATTAAT	1 cut(s)	990
Asp700I	GAANNNNTTC	2 cut(s)	416, 1095
AspLEI	GCGC	2 cut(s)	14, 308
AspS9I	GGNCC	1 cut(s)	1227
AsuHPI	GGTGA	2 cut(s)	688, 1019
AsuII	TTCGAA	1 cut(s)	358
AvaI	CYCGRG	1 cut(s)	954
AvaII	GGWCC	1 cut(s)	1227
BbrPI	CACGTG	1 cut(s)	575
BbsI	GAAGAC	1 cut(s)	212
Bbv12I	GWGCWC	1 cut(s)	472
BbvI	GCAGC	3 cut(s)	281, 571, 1003
BccI	CCATC	3 cut(s)	224, 406, 1159
BciT130I	CCWGG	2 cut(s)	113, 1201
BcoDI	GTCTC	1 cut(s)	806
BfaI	CTAG	1 cut(s)	864
BfoI	RGCGCY	1 cut(s)	15
BfrI	CTTAAG	1 cut(s)	524
BisI	GCNGC	4 cut(s)	31, 270, 585, 1017
BlsI	GCNGC	4 cut(s)	32, 271, 586, 1018
Bme1390I	CCNGG	2 cut(s)	113, 1201
Bme18I	GGWCC	1 cut(s)	1227
BmeT110I	CYCGRG	1 cut(s)	954
BmgT120I	GGNCC	1 cut(s)	1227
BmiI	GGNNCC	2 cut(s)	507, 1149
BmrFI	CCNGG	2 cut(s)	113, 1201
BmrI	ACTGGG	1 cut(s)	486
BmsI	GCATC	4 cut(s)	542, 760, 984, 1139
BmuI	ACTGGG	1 cut(s)	486
BpiI	GAAGAC	1 cut(s)	212
Bpu14I	TTCGAA	1 cut(s)	358
BpuEI	CTTGAG	2 cut(s)	359, 428
BsaAI	YACGTR	2 cut(s)	575, 755
BsaHI	GRCGYC	1 cut(s)	251
BsaWI	WCCGGW	2 cut(s)	45, 1029
BsaXI	ACNNNNNCTCC	2 cut(s)	1201, 1231
Bsc4I	CCNNNNNNNGG	2 cut(s)	79, 1206
Bse1I	ACTGG	2 cut(s)	170, 481
BseBI	CCWGG	2 cut(s)	113, 1201
BseGI	GGATG	3 cut(s)	235, 398, 628
BseLI	CCNNNNNNNGG	2 cut(s)	79, 1206
BseMII	CTCAG	2 cut(s)	602, 801
BseNI	ACTGG	2 cut(s)	170, 481
BseRI	GAGGAG	6 cut(s)	164, 167, 170, 173, 758, 1222
BseXI	GCAGC	3 cut(s)	281, 571, 1003
Bsh1236I	CGCG	1 cut(s)	306
BshFI	GGCC	2 cut(s)	83, 651
BsiHKAI	GWGCWC	1 cut(s)	472
BsiHKCI	CYCGRG	1 cut(s)	954
BsiSI	CCGG	3 cut(s)	46, 1030, 1225
BslI	CCNNNNNNNGG	2 cut(s)	79, 1206
BsmAI	GTCTC	1 cut(s)	806
BsmI	GAATGC	3 cut(s)	33, 461, 546
BsnI	GGCC	2 cut(s)	83, 651
BsoBI	CYCGRG	1 cut(s)	954
Bsp119I	TTCGAA	1 cut(s)	358
Bsp1286I	GDGCHC	1 cut(s)	472
Bsp143I	GATC	3 cut(s)	429, 1158, 1212
BspACI	CCGC	4 cut(s)	5, 30, 343, 1052
BspANI	GGCC	2 cut(s)	83, 651
BspCNI	CTCAG	2 cut(s)	601, 802
BspFNI	CGCG	1 cut(s)	306
BspLI	GGNNCC	2 cut(s)	507, 1149
BspPI	GGATC	2 cut(s)	1166, 1220
BspQI	GCTCTTC	2 cut(s)	159, 1042
BspT104I	TTCGAA	1 cut(s)	358
BspTI	CTTAAG	1 cut(s)	524
BsrBI	CCGCTC	2 cut(s)	343, 1052
BsrI	ACTGG	2 cut(s)	170, 481
BssMI	GATC	3 cut(s)	429, 1158, 1212
BssNI	GRCGYC	1 cut(s)	251
Bst2UI	CCWGG	2 cut(s)	113, 1201
Bst4CI	ACNGT	1 cut(s)	983
Bst6I	CTCTTC	5 cut(s)	141, 159, 194, 1042, 1199
BstACI	GRCGYC	1 cut(s)	251
BstAFI	CTTAAG	1 cut(s)	524
BstAPI	GCANNNNNTGC	1 cut(s)	373
BstBAI	YACGTR	2 cut(s)	575, 755
BstBI	TTCGAA	1 cut(s)	358
BstC8I	GCNNGC	4 cut(s)	294, 531, 685, 750
BstDEI	CTNAG	4 cut(s)	273, 537, 588, 810
BstENI	CCTNNNNNAGG	1 cut(s)	1204
BstF5I	GGATG	3 cut(s)	235, 398, 628
BstFNI	CGCG	1 cut(s)	306
BstH2I	RGCGCY	1 cut(s)	15
BstHHI	GCGC	2 cut(s)	14, 308
BstKTI	GATC	3 cut(s)	432, 1161, 1215
BstMAI	GTCTC	1 cut(s)	806
BstMBI	GATC	3 cut(s)	429, 1158, 1212
BstMWI	GCNNNNNNNGC	4 cut(s)	11, 269, 373, 643
BstNI	CCWGG	2 cut(s)	113, 1201
BstNSI	RCATGY	2 cut(s)	380, 687
BstSCI	CCNGG	2 cut(s)	111, 1199
BstUI	CGCG	1 cut(s)	306
BstV1I	GCAGC	3 cut(s)	281, 571, 1003
BstV2I	GAAGAC	1 cut(s)	212
BstXI	CCANNNNNNTGG	1 cut(s)	604
BsuRI	GGCC	2 cut(s)	83, 651
BtsCI	GGATG	3 cut(s)	235, 398, 628
BtsIMutI	CAGTG	2 cut(s)	60, 939
Cac8I	GCNNGC	4 cut(s)	294, 531, 685, 750
CaiI	CAGNNNCTG	3 cut(s)	131, 185, 224
CfoI	GCGC	2 cut(s)	14, 308
Cfr13I	GGNCC	1 cut(s)	1227
CpoI	CGGWCCG	1 cut(s)	1227
Csp6I	GTAC	1 cut(s)	756
CspI	CGGWCCG	1 cut(s)	1227
CviAII	CATG	6 cut(s)	377, 511, 684, 767, 924, 1162
CviQI	GTAC	1 cut(s)	756
DdeI	CTNAG	4 cut(s)	273, 537, 588, 810
DpnI	GATC	3 cut(s)	431, 1160, 1214
DpnII	GATC	3 cut(s)	429, 1158, 1212
Eam1104I	CTCTTC	5 cut(s)	141, 159, 194, 1042, 1199
EarI	CTCTTC	5 cut(s)	141, 159, 194, 1042, 1199
EciI	GGCGGA	1 cut(s)	20
Eco47I	GGWCC	1 cut(s)	1227
Eco57I	CTGAAG	2 cut(s)	201, 892
Eco72I	CACGTG	1 cut(s)	575
Eco88I	CYCGRG	1 cut(s)	954
EcoNI	CCTNNNNNAGG	1 cut(s)	1204
EcoRII	CCWGG	2 cut(s)	111, 1199
EcoT22I	ATGCAT	1 cut(s)	768
FaeI	CATG	6 cut(s)	380, 514, 687, 770, 927, 1165
FatI	CATG	6 cut(s)	376, 510, 683, 766, 923, 1161
FauI	CCCGC	2 cut(s)	336, 1045
Fnu4HI	GCNGC	4 cut(s)	31, 270, 585, 1017
FokI	GGATG	3 cut(s)	242, 385, 635
Fsp4HI	GCNGC	4 cut(s)	31, 270, 585, 1017
FspBI	CTAG	1 cut(s)	864
GlaI	GCGC	2 cut(s)	13, 307
GluI	GCNGC	4 cut(s)	31, 270, 585, 1017
HaeII	RGCGCY	1 cut(s)	15
HaeIII	GGCC	2 cut(s)	83, 651
HapII	CCGG	3 cut(s)	46, 1030, 1225
HhaI	GCGC	2 cut(s)	14, 308
Hin1I	GRCGYC	1 cut(s)	251
Hin1II	CATG	6 cut(s)	380, 514, 687, 770, 927, 1165
Hin6I	GCGC	2 cut(s)	12, 306
HinP1I	GCGC	2 cut(s)	12, 306
HincII	GTYRAC	1 cut(s)	901
HindII	GTYRAC	1 cut(s)	901
HinfI	GANTC	8 cut(s)	75, 221, 234, 347, 559, 626, 668, 1007
HpaII	CCGG	3 cut(s)	46, 1030, 1225
HphI	GGTGA	2 cut(s)	688, 1019
Hpy166II	GTNNAC	2 cut(s)	848, 901
Hpy188I	TCNGA	6 cut(s)	220, 422, 591, 631, 811, 911
Hpy188III	TCNNGA	5 cut(s)	72, 247, 407, 433, 1004
Hpy8I	GTNNAC	2 cut(s)	848, 901
HpyAV	CCTTC	2 cut(s)	705, 1050
HpyCH4III	ACNGT	1 cut(s)	983
HpyCH4IV	ACGT	3 cut(s)	251, 574, 754
HpyCH4V	TGCA	4 cut(s)	125, 376, 752, 766
HpyF10VI	GCNNNNNNNGC	4 cut(s)	11, 269, 373, 643
HpyF3I	CTNAG	4 cut(s)	273, 537, 588, 810
HpySE526I	ACGT	3 cut(s)	251, 574, 754
Hsp92I	GRCGYC	1 cut(s)	251
Hsp92II	CATG	6 cut(s)	380, 514, 687, 770, 927, 1165
HspAI	GCGC	2 cut(s)	12, 306
Kzo9I	GATC	3 cut(s)	429, 1158, 1212
LguI	GCTCTTC	2 cut(s)	159, 1042
LmnI	GCTCC	2 cut(s)	475, 745
Lsp1109I	GCAGC	3 cut(s)	281, 571, 1003
LweI	GCATC	4 cut(s)	542, 760, 984, 1139
MaeI	CTAG	1 cut(s)	864
MaeII	ACGT	3 cut(s)	251, 574, 754
MalI	GATC	3 cut(s)	431, 1160, 1214
MbiI	CCGCTC	2 cut(s)	343, 1052
MboI	GATC	3 cut(s)	429, 1158, 1212
MhlI	GDGCHC	1 cut(s)	472
MluCI	AATT	8 cut(s)	323, 354, 412, 442, 578, 827, 858, 991
MlyI	GAGTC	2 cut(s)	230, 635
MmeI	TCCRAC	1 cut(s)	497
Mph1103I	ATGCAT	1 cut(s)	768
MroXI	GAANNNNTTC	2 cut(s)	416, 1095
MseI	TTAA	7 cut(s)	189, 326, 426, 525, 656, 819, 990
MslI	CAYNNNNRTG	1 cut(s)	515
MspCI	CTTAAG	1 cut(s)	524
MspI	CCGG	3 cut(s)	46, 1030, 1225
MspR9I	CCNGG	2 cut(s)	113, 1201
Mva1269I	GAATGC	3 cut(s)	33, 461, 546
MvaI	CCWGG	2 cut(s)	113, 1201
MvnI	CGCG	1 cut(s)	306
MwoI	GCNNNNNNNGC	4 cut(s)	11, 269, 373, 643
NdeII	GATC	3 cut(s)	429, 1158, 1212
NlaIII	CATG	6 cut(s)	380, 514, 687, 770, 927, 1165
NlaIV	GGNNCC	2 cut(s)	507, 1149
NsiI	ATGCAT	1 cut(s)	768
NspI	RCATGY	2 cut(s)	380, 687
NspV	TTCGAA	1 cut(s)	358
PaeI	GCATGC	1 cut(s)	687
PciSI	GCTCTTC	2 cut(s)	159, 1042
PctI	GAATGC	3 cut(s)	33, 461, 546
PdmI	GAANNNNTTC	2 cut(s)	416, 1095
PfeI	GAWTC	6 cut(s)	75, 234, 347, 559, 668, 1007
PkrI	GCNGC	4 cut(s)	32, 271, 586, 1018
PleI	GAGTC	2 cut(s)	229, 634
PmaCI	CACGTG	1 cut(s)	575
PmlI	CACGTG	1 cut(s)	575
PpsI	GAGTC	2 cut(s)	229, 634
Ppu21I	YACGTR	2 cut(s)	575, 755
PshBI	ATTAAT	1 cut(s)	990
Psp6I	CCWGG	2 cut(s)	111, 1199
PspCI	CACGTG	1 cut(s)	575
PspGI	CCWGG	2 cut(s)	111, 1199
PspN4I	GGNNCC	2 cut(s)	507, 1149
PspPI	GGNCC	1 cut(s)	1227
PstNI	CAGNNNCTG	3 cut(s)	131, 185, 224
RsaI	GTAC	1 cut(s)	757
RsaNI	GTAC	1 cut(s)	756
RseI	CAYNNNNRTG	1 cut(s)	515
Rsr2I	CGGWCCG	1 cut(s)	1227
RsrII	CGGWCCG	1 cut(s)	1227
SapI	GCTCTTC	2 cut(s)	159, 1042
SaqAI	TTAA	7 cut(s)	189, 326, 426, 525, 656, 819, 990
SatI	GCNGC	4 cut(s)	31, 270, 585, 1017
Sau3AI	GATC	3 cut(s)	429, 1158, 1212
Sau96I	GGNCC	1 cut(s)	1227
SchI	GAGTC	2 cut(s)	230, 635
ScrFI	CCNGG	2 cut(s)	113, 1201
SduI	GDGCHC	1 cut(s)	472
SfaNI	GCATC	4 cut(s)	542, 760, 984, 1139
SfuI	TTCGAA	1 cut(s)	358
SinI	GGWCC	1 cut(s)	1227
SmiMI	CAYNNNNRTG	1 cut(s)	515
SmlI	CTYRAG	3 cut(s)	338, 407, 524
SmoI	CTYRAG	3 cut(s)	338, 407, 524
SphI	GCATGC	1 cut(s)	687
Sse9I	AATT	8 cut(s)	323, 354, 412, 442, 578, 827, 858, 991
SsiI	CCGC	4 cut(s)	5, 30, 343, 1052
SspMI	CTAG	1 cut(s)	864
StyD4I	CCNGG	2 cut(s)	111, 1199
TaaI	ACNGT	1 cut(s)	983
TaiI	ACGT	3 cut(s)	254, 577, 757
TaqI	TCGA	8 cut(s)	78, 107, 117, 350, 358, 550, 778, 872
TasI	AATT	8 cut(s)	323, 354, 412, 442, 578, 827, 858, 991
TauI	GCSGC	1 cut(s)	33
TfiI	GAWTC	6 cut(s)	75, 234, 347, 559, 668, 1007
Tru1I	TTAA	7 cut(s)	189, 326, 426, 525, 656, 819, 990
Tru9I	TTAA	7 cut(s)	189, 326, 426, 525, 656, 819, 990
TscAI	CASTG	2 cut(s)	67, 946
TseI	GCWGC	3 cut(s)	269, 584, 1016
TspDTI	ATGAA	5 cut(s)	6, 315, 455, 533, 1104
TspGWI	ACGGA	2 cut(s)	224, 1123
TspRI	CASTG	2 cut(s)	67, 946
Vha464I	CTTAAG	1 cut(s)	524
VpaK11BI	GGWCC	1 cut(s)	1227
VspI	ATTAAT	1 cut(s)	990
XagI	CCTNNNNNAGG	1 cut(s)	1204
XapI	RAATTY	2 cut(s)	412, 858
XceI	RCATGY	2 cut(s)	380, 687
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1180
XmnI	GAANNNNTTC	2 cut(s)	416, 1095
XspI	CTAG	1 cut(s)	864
ZraI	GACGTC	1 cut(s)	252
Zsp2I	ATGCAT	1 cut(s)	768

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