Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0002950

Physical Location & Seq

Genomic Coordinates Reverse (-)

35861768 .. 35863461

Gene Structure 1694 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG201100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1119 bp

ATGGCGGCCATTCCTCTGGGCCTGCAACAGCGTGATGTTATCGGCATTGCGGAGACAGGTTCTGGTAAGACTGCTGCCTTTGTTCTTCCTATGTTGACATATATTTCTAGGTTGCCTCCTATTAGTGAAGAGAATGAGGCTGAAGGGCCATTTGCTGTTGTTATGGCACCTACTCGTGAGCTTGCGCAGCAGAGTGAGGAAGAGACCTCAATTGAAGAACAGGGTTTTAAGATTAGGCAAGGATGTGAGGTTGTTATTGCTACGCCGGGGCGGTTGATTGATTGTTTGGAGAGGCGTTATGCTGTTTTGAATCAGTGCAATTATGTTGTTCTTGATGAGGCTGATAGGATGATTGAGCCGCAGGTTGTAGGTGTTTTGGATGCAATGCCTTCCAACAATTTCAAACCTGAGAATGAGGATGAAGAGCTTGATGACAAGAAGATTTACAGAACCACTTATATGTTTAGTGCCACCATGCCTCCTGCGGTGGAGCGACTTGCTCAGAAGTTTGAGAGGCTAAAGAGATTGCTTGACGAACTTGGTGATAAGACTGCTATTGTGTTTGTTAACACCAAGAAAACTGCTAATTATGTAGCCAAGAGTTTGGATAAGAATGGATATCGTGTGACCACTTTGCATGGGGGGAAATCACAAGACCAGAGAGAAATTAGCCTTGAAGGTTTTAGGACCAGGAGATACAATGTCCTTGTTGCAACGGATGTTGCAGGACGTGGTATTGATATACCTGATGTGGCCCATGTAATTAATTATGATATGCCCTCAAGTATTGAAACATACACCCATCGTATTGGACGTACTGGACGTGCAGGGAACACTGGTGTAGCCACATCATTGTTGACAATTCACGACACTGATGTCTTCTATGATCTCAAGCAGATGCTCATTCAGAGTAACAGTCATGTTCCTCCTGAACTGGCAAAACATGAAGCCTTGAAGTTCAAGCCTGGTTCTATTCCTGATAGGCCACCTAGACACATCTTAGCTTCTGCTGGAACTAAGGAATGTCTTTGGGTCACCTCCATCATAGTGGTTCAGGTAACAGAGCTCTGCTTGACCACCTTGCCAGGCAGCAGTGCAGCATCAATGAAACATCTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005682 GO:0005730 GO:0005737 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0008380 GO:0009987 GO:0010467 GO:0010501 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0030532 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0070035 GO:0071013 GO:0071704 GO:0090304 GO:0097525 GO:0120114 GO:0140098 GO:1901360 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

372

Amino Acids

41.21

Weight (kDa)

5.72

Isoelectric Point (pI)

42.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	2 - 165	6e-28	DEAD/DEAH box helicase
Helicase_C	PF00271	168 - 277	1.1e-34	Helicase conserved C-terminal domain

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: OG0002950)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G28180 AT1G28180 AT2G33730
fragaria_vesca	FvH4_1g07870 FvH4_2g13750
malus_domestica	MD05G1025300.v1.1 MD10G1025500.v1.1
prunus_persica	Prupe.8G029000_v2.0.a1 Prupe.8G029000_v2.0.a1
pyrus_communis	pycom05g01650 pycom10g01680
rosa_chinensis	RchiOBHm_Chr1g0333041 RchiOBHm_Chr2g0093751 RchiOBHm_Chr2g0093761 RchiOBHm_Chr6g0275441
rosa_laevigata	RLG00000013755 RLG00000016434
rosa_multiflora	Rmu_sc0004143.1_g000018 Rmu_sc0021925.1_g000003
rosa_roxburghii	Rroxscaffold_3G00237200 Rroxscaffold_7G00193300
rosa_rugosa	Rorug02G0039500 Rorug06G0092300 Rorug06G0092400 Rorug07G0206900
rosa_samantha	Rh1AG129900 Rh1CG123700 Rh1DG135400 Rh2BG086300 Rh2CG088700 Rh2DG084300 Rh2DG084400 Rh6AG205700 Rh6CG210900 Rh6DG201100 Rh7BG338800
rosa_wichuraiana	Rw1G010290 Rw6G017840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	875
Acc16I	TGCGCA	1 cut(s)	186
Acc36I	ACCTGC	1 cut(s)	352
AccB1I	GGYRCC	1 cut(s)	166
AciI	CCGC	5 cut(s)	5, 50, 271, 359, 485
AcoI	YGGCCR	1 cut(s)	6
AcuI	CTGAAG	1 cut(s)	162
AfaI	GTAC	1 cut(s)	817
AgsI	TTSAA	7 cut(s)	215, 310, 403, 677, 791, 955, 961
AjiI	CACGTC	2 cut(s)	731, 824
AjnI	CCWGG	3 cut(s)	689, 964, 1084
AluBI	AGCT	4 cut(s)	181, 427, 1004, 1066
AluI	AGCT	4 cut(s)	181, 427, 1004, 1066
Alw21I	GWGCWC	1 cut(s)	1068
Alw26I	GTCTC	2 cut(s)	47, 197
AlwNI	CAGNNNCTG	1 cut(s)	62
AoxI	GGCC	5 cut(s)	6, 19, 146, 753, 983
ApeKI	GCWGC	4 cut(s)	74, 187, 1089, 1097
AseI	ATTAAT	1 cut(s)	765
AspLEI	GCGC	1 cut(s)	187
AspS9I	GGNCC	4 cut(s)	19, 146, 687, 754
AsuC2I	CCSGG	1 cut(s)	267
AsuHPI	GGTGA	2 cut(s)	554, 1027
AvaII	GGWCC	1 cut(s)	687
BanI	GGYRCC	1 cut(s)	166
BanII	GRGCYC	1 cut(s)	1068
BauI	CACGAG	1 cut(s)	174
BbsI	GAAGAC	1 cut(s)	871
Bbv12I	GWGCWC	1 cut(s)	1068
BbvI	GCAGC	4 cut(s)	61, 199, 1101, 1109
BccI	CCATC	2 cut(s)	810, 1049
BciT130I	CCWGG	3 cut(s)	691, 966, 1086
BcnI	CCSGG	1 cut(s)	267
BcoDI	GTCTC	2 cut(s)	47, 197
BfaI	CTAG	2 cut(s)	108, 990
BfuAI	ACCTGC	1 cut(s)	352
BisI	GCNGC	6 cut(s)	6, 75, 188, 359, 1090, 1098
BlsI	GCNGC	6 cut(s)	7, 76, 189, 360, 1091, 1099
Bme1390I	CCNGG	4 cut(s)	267, 691, 966, 1086
Bme18I	GGWCC	1 cut(s)	687
BmgBI	CACGTC	2 cut(s)	731, 824
BmgT120I	GGNCC	4 cut(s)	19, 146, 687, 754
BmiI	GGNNCC	1 cut(s)	168
BmrFI	CCNGG	4 cut(s)	267, 691, 966, 1086
BmsI	GCATC	3 cut(s)	370, 888, 1109
BpiI	GAAGAC	1 cut(s)	871
BpuEI	CTTGAG	2 cut(s)	766, 875
BpuMI	CCSGG	1 cut(s)	267
BsaI	GGTCTC	1 cut(s)	197
BsaJI	CCNNGG	1 cut(s)	266
BsaXI	ACNNNNNCTCC	2 cut(s)	463, 493
Bse1I	ACTGG	3 cut(s)	823, 841, 939
Bse3DI	GCAATG	2 cut(s)	45, 390
BseBI	CCWGG	3 cut(s)	691, 966, 1086
BseDI	CCNNGG	1 cut(s)	266
BseGI	GGATG	5 cut(s)	248, 354, 385, 424, 724
BseMI	GCAATG	2 cut(s)	45, 390
BseMII	CTCAG	2 cut(s)	399, 515
BseNI	ACTGG	3 cut(s)	823, 841, 939
BseXI	GCAGC	4 cut(s)	61, 199, 1101, 1109
BsgI	GTGCAG	2 cut(s)	846, 1116
BshFI	GGCC	5 cut(s)	8, 21, 148, 755, 985
BshNI	GGYRCC	1 cut(s)	166
BsiHKAI	GWGCWC	1 cut(s)	1068
BsiSI	CCGG	1 cut(s)	266
BsmAI	GTCTC	2 cut(s)	47, 197
BsnI	GGCC	5 cut(s)	8, 21, 148, 755, 985
Bso31I	GGTCTC	1 cut(s)	197
Bsp1286I	GDGCHC	1 cut(s)	1068
Bsp143I	GATC	1 cut(s)	886
BspACI	CCGC	5 cut(s)	5, 50, 271, 359, 485
BspANI	GGCC	5 cut(s)	8, 21, 148, 755, 985
BspCNI	CTCAG	2 cut(s)	400, 514
BspLI	GGNNCC	1 cut(s)	168
BspMI	ACCTGC	1 cut(s)	352
BspQI	GCTCTTC	1 cut(s)	417
BspT107I	GGYRCC	1 cut(s)	166
BspTNI	GGTCTC	1 cut(s)	197
BsrDI	GCAATG	2 cut(s)	45, 390
BsrI	ACTGG	3 cut(s)	823, 841, 939
BssECI	CCNNGG	1 cut(s)	266
BssMI	GATC	1 cut(s)	886
BssSI	CACGAG	1 cut(s)	174
Bst2BI	CACGAG	1 cut(s)	174
Bst2UI	CCWGG	3 cut(s)	691, 966, 1086
Bst4CI	ACNGT	1 cut(s)	917
Bst6I	CTCTTC	3 cut(s)	123, 195, 417
BstC8I	GCNNGC	2 cut(s)	23, 183
BstDEI	CTNAG	4 cut(s)	408, 501, 1000, 1017
BstEII	GGTNACC	1 cut(s)	1033
BstF5I	GGATG	5 cut(s)	248, 354, 385, 424, 724
BstHHI	GCGC	1 cut(s)	187
BstKTI	GATC	1 cut(s)	889
BstMAI	GTCTC	2 cut(s)	47, 197
BstMBI	GATC	1 cut(s)	886
BstMWI	GCNNNNNNNGC	1 cut(s)	187
BstNI	CCWGG	3 cut(s)	691, 966, 1086
BstPI	GGTNACC	1 cut(s)	1033
BstSCI	CCNGG	4 cut(s)	265, 689, 964, 1084
BstV1I	GCAGC	4 cut(s)	61, 199, 1101, 1109
BstV2I	GAAGAC	1 cut(s)	871
BstXI	CCANNNNNNTGG	4 cut(s)	16, 604, 809, 1048
BsuRI	GGCC	5 cut(s)	8, 21, 148, 755, 985
BtrI	CACGTC	2 cut(s)	731, 824
BtsCI	GGATG	5 cut(s)	248, 354, 385, 424, 724
BtsI	GCAGTG	1 cut(s)	1099
BtsIMutI	CAGTG	4 cut(s)	320, 834, 870, 1099
BveI	ACCTGC	1 cut(s)	352
Cac8I	GCNNGC	2 cut(s)	23, 183
CaiI	CAGNNNCTG	1 cut(s)	62
CfoI	GCGC	1 cut(s)	187
Cfr13I	GGNCC	4 cut(s)	19, 146, 687, 754
Csp6I	GTAC	1 cut(s)	816
CviAII	CATG	5 cut(s)	475, 638, 758, 920, 944
CviQI	GTAC	1 cut(s)	816
DdeI	CTNAG	4 cut(s)	408, 501, 1000, 1017
DpnI	GATC	1 cut(s)	888
DpnII	GATC	1 cut(s)	886
DrdI	GACNNNNNNGTC	1 cut(s)	875
DseDI	GACNNNNNNGTC	1 cut(s)	875
EaeI	YGGCCR	1 cut(s)	6
Eam1104I	CTCTTC	3 cut(s)	123, 195, 417
EarI	CTCTTC	3 cut(s)	123, 195, 417
Ecl136II	GAGCTC	1 cut(s)	1066
Eco24I	GRGCYC	1 cut(s)	1068
Eco31I	GGTCTC	1 cut(s)	197
Eco32I	GATATC	1 cut(s)	620
Eco47I	GGWCC	1 cut(s)	687
Eco53kI	GAGCTC	1 cut(s)	1066
Eco57I	CTGAAG	1 cut(s)	162
Eco91I	GGTNACC	1 cut(s)	1033
EcoICRI	GAGCTC	1 cut(s)	1066
EcoO65I	GGTNACC	1 cut(s)	1033
EcoRII	CCWGG	3 cut(s)	689, 964, 1084
EcoRV	GATATC	1 cut(s)	620
EcoT38I	GRGCYC	1 cut(s)	1068
FaeI	CATG	5 cut(s)	478, 641, 761, 923, 947
FatI	CATG	5 cut(s)	474, 637, 757, 919, 943
Fnu4HI	GCNGC	6 cut(s)	6, 75, 188, 359, 1090, 1098
FokI	GGATG	5 cut(s)	255, 361, 392, 431, 731
FriOI	GRGCYC	1 cut(s)	1068
Fsp4HI	GCNGC	6 cut(s)	6, 75, 188, 359, 1090, 1098
FspBI	CTAG	2 cut(s)	108, 990
FspI	TGCGCA	1 cut(s)	186
GlaI	GCGC	1 cut(s)	186
GluI	GCNGC	6 cut(s)	6, 75, 188, 359, 1090, 1098
HaeIII	GGCC	5 cut(s)	8, 21, 148, 755, 985
HapII	CCGG	1 cut(s)	266
HhaI	GCGC	1 cut(s)	187
Hin1II	CATG	5 cut(s)	478, 641, 761, 923, 947
Hin6I	GCGC	1 cut(s)	185
HinP1I	GCGC	1 cut(s)	185
HincII	GTYRAC	3 cut(s)	96, 568, 858
HindII	GTYRAC	3 cut(s)	96, 568, 858
HinfI	GANTC	1 cut(s)	310
HpaI	GTTAAC	1 cut(s)	568
HpaII	CCGG	1 cut(s)	266
HphI	GGTGA	2 cut(s)	554, 1027
Hpy166II	GTNNAC	3 cut(s)	96, 568, 858
Hpy188I	TCNGA	3 cut(s)	504, 909, 1118
Hpy188III	TCNNGA	5 cut(s)	176, 332, 866, 929, 977
Hpy8I	GTNNAC	3 cut(s)	96, 568, 858
HpyAV	CCTTC	3 cut(s)	137, 399, 671
HpyCH4III	ACNGT	1 cut(s)	917
HpyCH4IV	ACGT	3 cut(s)	730, 814, 823
HpyCH4V	TGCA	8 cut(s)	25, 318, 383, 637, 713, 725, 827, 1097
HpyF10VI	GCNNNNNNNGC	1 cut(s)	187
HpyF3I	CTNAG	4 cut(s)	408, 501, 1000, 1017
HpySE526I	ACGT	3 cut(s)	730, 814, 823
Hsp92II	CATG	5 cut(s)	478, 641, 761, 923, 947
HspAI	GCGC	1 cut(s)	185
KspAI	GTTAAC	1 cut(s)	568
Kzo9I	GATC	1 cut(s)	886
LguI	GCTCTTC	1 cut(s)	417
LmnI	GCTCC	1 cut(s)	490
Lsp1109I	GCAGC	4 cut(s)	61, 199, 1101, 1109
LweI	GCATC	3 cut(s)	370, 888, 1109
MaeI	CTAG	2 cut(s)	108, 990
MaeII	ACGT	3 cut(s)	730, 814, 823
MaeIII	GTNAC	4 cut(s)	625, 911, 1033, 1057
MalI	GATC	1 cut(s)	888
MboI	GATC	1 cut(s)	886
MboII	GAAGA	7 cut(s)	77, 140, 212, 227, 434, 451, 871
MfeI	CAATTG	1 cut(s)	210
MhlI	GDGCHC	1 cut(s)	1068
MluCI	AATT	8 cut(s)	210, 319, 397, 586, 666, 762, 766, 861
MmeI	TCCRAC	1 cut(s)	417
MseI	TTAA	3 cut(s)	228, 567, 765
MslI	CAYNNNNRTG	2 cut(s)	458, 1046
MspI	CCGG	1 cut(s)	266
MspR9I	CCNGG	4 cut(s)	267, 691, 966, 1086
MunI	CAATTG	1 cut(s)	210
MvaI	CCWGG	3 cut(s)	691, 966, 1086
MwoI	GCNNNNNNNGC	1 cut(s)	187
NciI	CCSGG	1 cut(s)	267
NdeII	GATC	1 cut(s)	886
NlaIII	CATG	5 cut(s)	478, 641, 761, 923, 947
NlaIV	GGNNCC	1 cut(s)	168
NmuCI	GTSAC	2 cut(s)	625, 1033
NsbI	TGCGCA	1 cut(s)	186
PciSI	GCTCTTC	1 cut(s)	417
PcsI	WCGNNNNNNNCGW	2 cut(s)	811, 820
PfeI	GAWTC	1 cut(s)	310
PkrI	GCNGC	6 cut(s)	7, 76, 189, 360, 1091, 1099
PshBI	ATTAAT	1 cut(s)	765
Psp124BI	GAGCTC	1 cut(s)	1068
Psp6I	CCWGG	3 cut(s)	689, 964, 1084
PspEI	GGTNACC	1 cut(s)	1033
PspGI	CCWGG	3 cut(s)	689, 964, 1084
PspN4I	GGNNCC	1 cut(s)	168
PspPI	GGNCC	4 cut(s)	19, 146, 687, 754
PstNI	CAGNNNCTG	1 cut(s)	62
RsaI	GTAC	1 cut(s)	817
RsaNI	GTAC	1 cut(s)	816
RseI	CAYNNNNRTG	2 cut(s)	458, 1046
SacI	GAGCTC	1 cut(s)	1068
SapI	GCTCTTC	1 cut(s)	417
SaqAI	TTAA	3 cut(s)	228, 567, 765
SatI	GCNGC	6 cut(s)	6, 75, 188, 359, 1090, 1098
Sau3AI	GATC	1 cut(s)	886
Sau96I	GGNCC	4 cut(s)	19, 146, 687, 754
ScrFI	CCNGG	4 cut(s)	267, 691, 966, 1086
SduI	GDGCHC	1 cut(s)	1068
SfaNI	GCATC	3 cut(s)	370, 888, 1109
SinI	GGWCC	1 cut(s)	687
SmiMI	CAYNNNNRTG	2 cut(s)	458, 1046
SmlI	CTYRAG	2 cut(s)	781, 890
SmoI	CTYRAG	2 cut(s)	781, 890
Sse9I	AATT	8 cut(s)	210, 319, 397, 586, 666, 762, 766, 861
SsiI	CCGC	5 cut(s)	5, 50, 271, 359, 485
SspMI	CTAG	2 cut(s)	108, 990
SstI	GAGCTC	1 cut(s)	1068
StyD4I	CCNGG	4 cut(s)	265, 689, 964, 1084
TaaI	ACNGT	1 cut(s)	917
TaiI	ACGT	3 cut(s)	733, 817, 826
TasI	AATT	8 cut(s)	210, 319, 397, 586, 666, 762, 766, 861
TauI	GCSGC	2 cut(s)	8, 361
TfiI	GAWTC	1 cut(s)	310
Tru1I	TTAA	3 cut(s)	228, 567, 765
Tru9I	TTAA	3 cut(s)	228, 567, 765
TscAI	CASTG	4 cut(s)	320, 841, 877, 1099
TseFI	GTSAC	2 cut(s)	625, 1033
TseI	GCWGC	4 cut(s)	74, 187, 1089, 1097
Tsp45I	GTSAC	2 cut(s)	625, 1033
TspDTI	ATGAA	2 cut(s)	435, 960
TspGWI	ACGGA	1 cut(s)	731
TspRI	CASTG	4 cut(s)	320, 841, 877, 1099
VpaK11BI	GGWCC	1 cut(s)	687
VspI	ATTAAT	1 cut(s)	765
XspI	CTAG	2 cut(s)	108, 990

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