Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0002950

Physical Location & Seq

Genomic Coordinates Forward (+)

6628500 .. 6630122

Gene Structure 1623 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000016434

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1152 bp

ATGAATGAGAGGGACTGGAGGATTTTCCCAGAGGACTTCAATATTTCATACAAAGGGTCTAGGATTCCTAGACCTATTAGGAATTGGGATGAGAGTAAATTGAGCGCGGAGTTGCTCGAGGCTGTGAAGAGGGCTGGTTATAAGAAGCCGTCTCCCATTCAGATGGCAGCAATCCCTATCGGTTTGCAACAGCATGATGTTATTGGCATTGCAGAGACTGGTTCCGGCAAGACTGCTACCTTTGTTCTTCCTATGTCAAGTTATATTTCTAGGTTGCCTACTATTAGTGAAGAGAATGAGGCAGAAGGGCCTTATGCTGTGGTTTTGGCACCTACTCGTGAGCTTGCGCAGCAGATTGAGAAAGAGGCTGTCAAGTTTGCGCTTTACTTGGGTATCAAGGTGGTTTCTATTGTTGGTGGGAAGTCGATTGAGGAACAGGGAATTAGAATCGCACAAGGATGTGAGGTTGTCATTGCCACACCAGGGCGTTTGATTGATTGTTTGCAGAGGCGTCTTGCTGTTTTGAATCAGTGCAACTATGTGGTACTTGACGAGGCTGATACGATGATAGATAAGGGACTTGAGGACCAGGTTGTTGGTGTTTTGGATGCAATGCCTTCGAGCAACTTGAAACCTGAGAATGAGAATGAAGAGCTTGATGACAAGAAGATTTACAGAACCACTTATATGTTCAGTGCAATCACCATTGGCAGTGCCGGAACCACCACTGATTTGATCACTCGGAATGTGGTCATGATCAGCAAGGAGTCGGAAAAGTTTGAAAAGCTAAAGAGATTGATGAAATACTTGAGAGACTCTAACCTTGAAGGTTTTAAGACCAAGAGATATAATGTCCTCGTTGCAACAGATGCTGCAGGACGAGGTATTGATGTACCTGATGTGGCACATGTAATTAATTATGAAATGCCGCCAAAGATAGAAAAGTATACCCATCGTATTGGACGTACTGGTCGTGCAGGAAAGACTGGTTTAGCCACAACATTCTTGACAATGCAAGACACTGGGGTGTTCTATGATCTCAAGAAGATGCTCATTCAGAGTAACAGTCCTGTGCCTCCTGAACTAGCGAGACATGAAGCCTCAAAGTACAAGCCTGTCACAATTCCTGACAGACCACCGAGGCATAACTAG

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

384

Amino Acids

42.77

Weight (kDa)

8.21

Isoelectric Point (pI)

41.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	51 - 233	2.7e-39	DEAD/DEAH box helicase
Helicase_C	PF00271	260 - 327	4.5e-20	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)
AanI	TTATAA	1 cut(s)	141
AasI	GACNNNNNNGTC	1 cut(s)	969
Acc16I	TGCGCA	1 cut(s)	348
AccB1I	GGYRCC	1 cut(s)	328
AccI	GTMKAC	1 cut(s)	947
AccII	CGCG	1 cut(s)	107
AciI	CCGC	2 cut(s)	107, 929
AcyI	GRCGYC	1 cut(s)	511
AfaI	GTAC	4 cut(s)	546, 894, 967, 1109
AfiI	CCNNNNNNNGG	1 cut(s)	483
AflIII	ACRYGT	1 cut(s)	907
AgsI	TTSAA	5 cut(s)	40, 526, 631, 782, 827
AjnI	CCWGG	2 cut(s)	481, 588
AleI	CACNNNNGTG	1 cut(s)	1025
AluBI	AGCT	3 cut(s)	343, 655, 787
AluI	AGCT	3 cut(s)	343, 655, 787
Alw26I	GTCTC	4 cut(s)	156, 209, 807, 1084
AlwNI	CAGNNNCTG	2 cut(s)	218, 872
Ama87I	CYCGRG	1 cut(s)	116
AoxI	GGCC	1 cut(s)	308
ApeKI	GCWGC	3 cut(s)	167, 349, 872
AseI	ATTAAT	1 cut(s)	915
AspLEI	GCGC	3 cut(s)	107, 349, 382
AspS9I	GGNCC	2 cut(s)	308, 586
AsuHPI	GGTGA	1 cut(s)	694
AvaI	CYCGRG	1 cut(s)	116
AvaII	GGWCC	1 cut(s)	586
BaeI	ACNNNNGTAYC	2 cut(s)	376, 409
BanI	GGYRCC	1 cut(s)	328
BauI	CACGAG	1 cut(s)	336
BbvI	GCAGC	3 cut(s)	179, 361, 859
BccI	CCATC	2 cut(s)	157, 960
BceAI	ACGGC	1 cut(s)	133
BcgI	CGANNNNNNTGC	2 cut(s)	600, 634
BciT130I	CCWGG	2 cut(s)	483, 590
BclI	TGATCA	2 cut(s)	735, 756
BcoDI	GTCTC	4 cut(s)	156, 209, 807, 1084
BfaI	CTAG	5 cut(s)	60, 69, 270, 1085, 1150
BfmI	CTRYAG	1 cut(s)	873
BisI	GCNGC	4 cut(s)	168, 350, 873, 929
BlsI	GCNGC	4 cut(s)	169, 351, 874, 930
Bme1390I	CCNGG	2 cut(s)	483, 590
Bme18I	GGWCC	1 cut(s)	586
BmeT110I	CYCGRG	1 cut(s)	116
BmgT120I	GGNCC	2 cut(s)	308, 586
BmiI	GGNNCC	3 cut(s)	223, 330, 721
BmrFI	CCNGG	2 cut(s)	483, 590
BmrI	ACTGGG	1 cut(s)	1032
BmsI	GCATC	3 cut(s)	598, 859, 1038
BmuI	ACTGGG	1 cut(s)	1032
BpmI	CTGGAG	1 cut(s)	37
BpuEI	CTTGAG	3 cut(s)	602, 829, 1025
BsaHI	GRCGYC	1 cut(s)	511
BsaJI	CCNNGG	2 cut(s)	482, 1139
Bsc4I	CCNNNNNNNGG	1 cut(s)	483
Bse1I	ACTGG	5 cut(s)	20, 223, 973, 991, 1027
Bse3DI	GCAATG	3 cut(s)	207, 471, 618
BseBI	CCWGG	2 cut(s)	483, 590
BseDI	CCNNGG	2 cut(s)	482, 1139
BseGI	GGATG	3 cut(s)	94, 464, 613
BseLI	CCNNNNNNNGG	1 cut(s)	483
BseMI	GCAATG	3 cut(s)	207, 471, 618
BseMII	CTCAG	1 cut(s)	627
BseNI	ACTGG	5 cut(s)	20, 223, 973, 991, 1027
BseXI	GCAGC	3 cut(s)	179, 361, 859
BsgI	GTGCAG	1 cut(s)	996
Bsh1236I	CGCG	1 cut(s)	107
BshFI	GGCC	1 cut(s)	310
BshNI	GGYRCC	1 cut(s)	328
BsiHKCI	CYCGRG	1 cut(s)	116
BsiSI	CCGG	2 cut(s)	225, 717
BslFI	GGGAC	2 cut(s)	26, 591
BslI	CCNNNNNNNGG	1 cut(s)	483
BsmAI	GTCTC	4 cut(s)	156, 209, 807, 1084
BsmBI	CGTCTC	1 cut(s)	156
BsmFI	GGGAC	2 cut(s)	26, 591
BsnI	GGCC	1 cut(s)	310
BsoBI	CYCGRG	1 cut(s)	116
Bsp143I	GATC	3 cut(s)	735, 756, 1036
BspACI	CCGC	2 cut(s)	107, 929
BspANI	GGCC	1 cut(s)	310
BspCNI	CTCAG	1 cut(s)	628
BspFNI	CGCG	1 cut(s)	107
BspHI	TCATGA	1 cut(s)	753
BspLI	GGNNCC	3 cut(s)	223, 330, 721
BspMAI	CTGCAG	1 cut(s)	877
BspQI	GCTCTTC	1 cut(s)	645
BspT107I	GGYRCC	1 cut(s)	328
BsrDI	GCAATG	3 cut(s)	207, 471, 618
BsrI	ACTGG	5 cut(s)	20, 223, 973, 991, 1027
BssECI	CCNNGG	2 cut(s)	482, 1139
BssMI	GATC	3 cut(s)	735, 756, 1036
BssNAI	GTATAC	1 cut(s)	948
BssNI	GRCGYC	1 cut(s)	511
BssSI	CACGAG	1 cut(s)	336
Bst1107I	GTATAC	1 cut(s)	948
Bst2BI	CACGAG	1 cut(s)	336
Bst2UI	CCWGG	2 cut(s)	483, 590
Bst4CI	ACNGT	1 cut(s)	1067
Bst6I	CTCTTC	3 cut(s)	122, 285, 645
BstACI	GRCGYC	1 cut(s)	511
BstAPI	GCANNNNNTGC	1 cut(s)	869
BstC8I	GCNNGC	1 cut(s)	345
BstDEI	CTNAG	1 cut(s)	636
BstF5I	GGATG	3 cut(s)	94, 464, 613
BstFNI	CGCG	1 cut(s)	107
BstHHI	GCGC	3 cut(s)	107, 349, 382
BstKTI	GATC	3 cut(s)	738, 759, 1039
BstMAI	GTCTC	4 cut(s)	156, 209, 807, 1084
BstMBI	GATC	3 cut(s)	735, 756, 1036
BstMWI	GCNNNNNNNGC	2 cut(s)	349, 869
BstNI	CCWGG	2 cut(s)	483, 590
BstNSI	RCATGY	1 cut(s)	911
BstSCI	CCNGG	2 cut(s)	481, 588
BstSFI	CTRYAG	1 cut(s)	873
BstUI	CGCG	1 cut(s)	107
BstV1I	GCAGC	3 cut(s)	179, 361, 859
BstXI	CCANNNNNNTGG	3 cut(s)	163, 596, 959
BstZ17I	GTATAC	1 cut(s)	948
BsuRI	GGCC	1 cut(s)	310
BtsCI	GGATG	3 cut(s)	94, 464, 613
BtsI	GCAGTG	1 cut(s)	718
BtsIMutI	CAGTG	5 cut(s)	536, 700, 718, 726, 1020
Cac8I	GCNNGC	1 cut(s)	345
CaiI	CAGNNNCTG	2 cut(s)	218, 872
CciI	TCATGA	1 cut(s)	753
CfoI	GCGC	3 cut(s)	107, 349, 382
Cfr13I	GGNCC	2 cut(s)	308, 586
CseI	GACGC	1 cut(s)	500
CsiI	ACCWGGT	1 cut(s)	588
Csp6I	GTAC	4 cut(s)	545, 893, 966, 1108
CviAII	CATG	4 cut(s)	194, 754, 908, 1094
CviQI	GTAC	4 cut(s)	545, 893, 966, 1108
DdeI	CTNAG	1 cut(s)	636
DpnI	GATC	3 cut(s)	737, 758, 1038
DpnII	GATC	3 cut(s)	735, 756, 1036
DrdI	GACNNNNNNGTC	1 cut(s)	969
DseDI	GACNNNNNNGTC	1 cut(s)	969
Eam1104I	CTCTTC	3 cut(s)	122, 285, 645
EarI	CTCTTC	3 cut(s)	122, 285, 645
Eco47I	GGWCC	1 cut(s)	586
Eco88I	CYCGRG	1 cut(s)	116
EcoO109I	RGGNCCY	1 cut(s)	308
EcoRII	CCWGG	2 cut(s)	481, 588
Esp3I	CGTCTC	1 cut(s)	156
FaeI	CATG	4 cut(s)	197, 757, 911, 1097
FaqI	GGGAC	2 cut(s)	26, 591
FatI	CATG	4 cut(s)	193, 753, 907, 1093
FbaI	TGATCA	2 cut(s)	735, 756
FblI	GTMKAC	1 cut(s)	947
Fnu4HI	GCNGC	4 cut(s)	168, 350, 873, 929
FokI	GGATG	3 cut(s)	101, 471, 620
Fsp4HI	GCNGC	4 cut(s)	168, 350, 873, 929
FspBI	CTAG	5 cut(s)	60, 69, 270, 1085, 1150
FspI	TGCGCA	1 cut(s)	348
GlaI	GCGC	3 cut(s)	106, 348, 381
GluI	GCNGC	4 cut(s)	168, 350, 873, 929
GsuI	CTGGAG	1 cut(s)	37
HaeIII	GGCC	1 cut(s)	310
HapII	CCGG	2 cut(s)	225, 717
HgaI	GACGC	1 cut(s)	500
HhaI	GCGC	3 cut(s)	107, 349, 382
Hin1I	GRCGYC	1 cut(s)	511
Hin1II	CATG	4 cut(s)	197, 757, 911, 1097
Hin6I	GCGC	3 cut(s)	105, 347, 380
HinP1I	GCGC	3 cut(s)	105, 347, 380
HinfI	GANTC	5 cut(s)	64, 447, 526, 767, 815
HpaII	CCGG	2 cut(s)	225, 717
HphI	GGTGA	1 cut(s)	694
Hpy166II	GTNNAC	1 cut(s)	948
Hpy188I	TCNGA	4 cut(s)	162, 744, 772, 1059
Hpy188III	TCNNGA	6 cut(s)	338, 754, 1006, 1042, 1079, 1127
Hpy8I	GTNNAC	1 cut(s)	948
HpyAV	CCTTC	3 cut(s)	299, 627, 821
HpyCH4III	ACNGT	1 cut(s)	1067
HpyCH4IV	ACGT	1 cut(s)	964
HpyF10VI	GCNNNNNNNGC	2 cut(s)	349, 869
HpyF3I	CTNAG	1 cut(s)	636
HpySE526I	ACGT	1 cut(s)	964
Hsp92I	GRCGYC	1 cut(s)	511
Hsp92II	CATG	4 cut(s)	197, 757, 911, 1097
HspAI	GCGC	3 cut(s)	105, 347, 380
Ksp22I	TGATCA	2 cut(s)	735, 756
Kzo9I	GATC	3 cut(s)	735, 756, 1036
LguI	GCTCTTC	1 cut(s)	645
Lsp1109I	GCAGC	3 cut(s)	179, 361, 859
LweI	GCATC	3 cut(s)	598, 859, 1038
MabI	ACCWGGT	1 cut(s)	588
MaeI	CTAG	5 cut(s)	60, 69, 270, 1085, 1150
MaeII	ACGT	1 cut(s)	964
MaeIII	GTNAC	2 cut(s)	1061, 1117
MalI	GATC	3 cut(s)	737, 758, 1038
MboI	GATC	3 cut(s)	735, 756, 1036
MboII	GAAGA	6 cut(s)	139, 239, 302, 662, 679, 1057
MluCI	AATT	6 cut(s)	82, 98, 441, 912, 916, 1122
MlyI	GAGTC	2 cut(s)	776, 809
MmeI	TCCRAC	1 cut(s)	750
MseI	TTAA	2 cut(s)	834, 915
MslI	CAYNNNNRTG	4 cut(s)	161, 457, 686, 1025
MspI	CCGG	2 cut(s)	225, 717
MspR9I	CCNGG	2 cut(s)	483, 590
MvaI	CCWGG	2 cut(s)	483, 590
MvnI	CGCG	1 cut(s)	107
MwoI	GCNNNNNNNGC	2 cut(s)	349, 869
NdeII	GATC	3 cut(s)	735, 756, 1036
NlaIII	CATG	4 cut(s)	197, 757, 911, 1097
NlaIV	GGNNCC	3 cut(s)	223, 330, 721
NmuCI	GTSAC	1 cut(s)	1117
NsbI	TGCGCA	1 cut(s)	348
NspI	RCATGY	1 cut(s)	911
OliI	CACNNNNGTG	1 cut(s)	1025
PaeR7I	CTCGAG	1 cut(s)	116
PagI	TCATGA	1 cut(s)	753
PciI	ACATGT	1 cut(s)	907
PciSI	GCTCTTC	1 cut(s)	645
PcsI	WCGNNNNNNNCGW	2 cut(s)	961, 970
PfeI	GAWTC	3 cut(s)	64, 447, 526
PkrI	GCNGC	4 cut(s)	169, 351, 874, 930
PleI	GAGTC	2 cut(s)	775, 809
PpsI	GAGTC	2 cut(s)	775, 809
PscI	ACATGT	1 cut(s)	907
PshBI	ATTAAT	1 cut(s)	915
PsiI	TTATAA	1 cut(s)	141
Psp6I	CCWGG	2 cut(s)	481, 588
PspGI	CCWGG	2 cut(s)	481, 588
PspN4I	GGNNCC	3 cut(s)	223, 330, 721
PspPI	GGNCC	2 cut(s)	308, 586
PspXI	VCTCGAGB	1 cut(s)	116
PstI	CTGCAG	1 cut(s)	877
PstNI	CAGNNNCTG	2 cut(s)	218, 872
RsaI	GTAC	4 cut(s)	546, 894, 967, 1109
RsaNI	GTAC	4 cut(s)	545, 893, 966, 1108
RseI	CAYNNNNRTG	4 cut(s)	161, 457, 686, 1025
SapI	GCTCTTC	1 cut(s)	645
SaqAI	TTAA	2 cut(s)	834, 915
SatI	GCNGC	4 cut(s)	168, 350, 873, 929
Sau3AI	GATC	3 cut(s)	735, 756, 1036
Sau96I	GGNCC	2 cut(s)	308, 586
SchI	GAGTC	2 cut(s)	776, 809
ScrFI	CCNGG	2 cut(s)	483, 590
SexAI	ACCWGGT	1 cut(s)	588
SfaNI	GCATC	3 cut(s)	598, 859, 1038
SfcI	CTRYAG	1 cut(s)	873
Sfr274I	CTCGAG	1 cut(s)	116
SinI	GGWCC	1 cut(s)	586
SlaI	CTCGAG	1 cut(s)	116
SmiMI	CAYNNNNRTG	4 cut(s)	161, 457, 686, 1025
SmlI	CTYRAG	4 cut(s)	116, 581, 808, 1040
SmoI	CTYRAG	4 cut(s)	116, 581, 808, 1040
Sse9I	AATT	6 cut(s)	82, 98, 441, 912, 916, 1122
SsiI	CCGC	2 cut(s)	107, 929
SspI	AATATT	1 cut(s)	43
SspMI	CTAG	5 cut(s)	60, 69, 270, 1085, 1150
StyD4I	CCNGG	2 cut(s)	481, 588
TaaI	ACNGT	1 cut(s)	1067
TaiI	ACGT	1 cut(s)	967
TaqI	TCGA	3 cut(s)	117, 425, 620
TasI	AATT	6 cut(s)	82, 98, 441, 912, 916, 1122
TatI	WGTACW	1 cut(s)	1107
TauI	GCSGC	1 cut(s)	931
TfiI	GAWTC	3 cut(s)	64, 447, 526
Tru1I	TTAA	2 cut(s)	834, 915
Tru9I	TTAA	2 cut(s)	834, 915
TscAI	CASTG	5 cut(s)	536, 700, 718, 733, 1027
TseFI	GTSAC	1 cut(s)	1117
TseI	GCWGC	3 cut(s)	167, 349, 872
Tsp45I	GTSAC	1 cut(s)	1117
TspDTI	ATGAA	6 cut(s)	17, 36, 663, 815, 936, 1110
TspRI	CASTG	5 cut(s)	536, 700, 718, 733, 1027
VpaK11BI	GGWCC	1 cut(s)	586
VspI	ATTAAT	1 cut(s)	915
XceI	RCATGY	1 cut(s)	911
XhoI	CTCGAG	1 cut(s)	116
XmiI	GTMKAC	1 cut(s)	947
XspI	CTAG	5 cut(s)	60, 69, 270, 1085, 1150

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