Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0005279

Physical Location & Seq

Genomic Coordinates Reverse (-)

19348613 .. 19353581

Gene Structure 4969 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG178200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1017 bp

ATGGCCTCCGACGAACTAGACGGCGAGGTCAAGACCTTCAAGAGCTTGGGGCTCTGCGACCAATTGGTCGAGGCCGTTGCGAAGCTGGACTGGCAAAACCCTACCCCTATTCAAGTCGAAGCAATCCCTCATGCCCTAGAAGGAAAGGACTTGATCGGACTCGCCCAAACCGGGTCGGGTAAAACCGCTGCTTTTGCCCTTCCCATATTGCAAGCTCTCATTGATTCTCCTCATGCATTTTTTGCTTGCGTTCTCGCCCCAACTAGGGAGCTTGCAATTCAGATATCTGAGCAGTTTGAAGCTTTGGGGTATGAGTTTGGTGCCAAGTCCGCAGTGCTTGTTGGAGGAGTGGATATGGTCCAACAGACTATTATGCTTGCAAAGAGGCCACACATTATTGTTGCTACACCTGGACGCCTCATGGATCATGTATCCAACACAAAAGGATTTTCTCTTCGCACATTGAAGTATTTGGTTCTAGATGAGGCAGACAGATTGCTTAATGAGGACTTTGAAAAGACACTTGATGACATTCTGAAAGTCATCCCTCGCGAACGGAGAACATATTTGTTTTCTGCTACCATGACTAAAAAGGTCAAGAAGCTGCAAAGGGCTTGTCTAAGGAACCCTGTGAAGATTGAAGTAGCATCTAAATATTCTACCGTTGATACACTAAAGCAGCAGTATCGTTTTCTGCCGTCCCAGCATAAGGACTGTTATCTTGTATATATTCTGACTGAGAAGTGTCAATGTACAACTATGGTTTTTACTCGTACATGTGATGCAACACTCCTATTGGCTACGATGCTTCGAAATCTTGGCATAAGAGCCACCCCTATTAGTGGTCATATGAGCCAGTCAAAAAGACTTGGTGCCTTAAATATGTTTAAAGCTGGAGAGTGTAATGTACTTATCTGCACTGATGTGGCAAGTAGAGGATTGGATATTCCATCGGTGGATATGGTTATTAATTATGATATTCCCTCAAATTCTAAGGTGAGGCTTTCTATTTGCTAA

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

338

Amino Acids

37.43

Weight (kDa)

8.45

Isoelectric Point (pI)

34.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	35 - 201	1.8e-47	DEAD/DEAH box helicase
ResIII	PF04851	54 - 194	2.8e-06	Type III restriction enzyme, res subunit
Helicase_C	PF00271	241 - 332	8.4e-22	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: OG0005279)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G60990
fragaria_vesca	FvH4_3g15190 FvH4_3g15190 FvH4_3g15190
malus_domestica	MD10G1206500.v1.1
prunus_persica	Prupe.4G135800_v2.0.a1
pyrus_communis	pycom10g17630
rosa_chinensis	RchiOBHm_Chr2g0164771 RchiOBHm_Chr5g0025631
rosa_laevigata	RLG00000021484 RLG00000021488 RLG00000031602 RLG00000032853
rosa_multiflora	Rmu_sc0002137.1_g000001
rosa_roxburghii	Rroxscaffold_1G00053540 Rroxscaffold_1G00054150 Rroxscaffold_2G00083670 Rroxscaffold_2G00086310
rosa_rugosa	Rorug02G0510100 Rorug02G0529200 Rorug05G0087300
rosa_samantha	Rh2AG578400 Rh2BG589500 Rh2CG560100 Rh2DG599900 Rh5AG179100 Rh5BG178200 Rh5DG177400
rosa_wichuraiana	Rw5G016260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	2 cut(s)	26, 65
AccB1I	GGYRCC	2 cut(s)	320, 872
AccII	CGCG	1 cut(s)	552
AciI	CCGC	2 cut(s)	186, 330
AclWI	GGATC	1 cut(s)	432
AcsI	RAATTY	1 cut(s)	988
AcyI	GRCGYC	1 cut(s)	415
AfaI	GTAC	3 cut(s)	754, 775, 909
AfiI	CCNNNNNNNGG	5 cut(s)	171, 264, 265, 709, 842
AflIII	ACRYGT	1 cut(s)	776
AgsI	TTSAA	6 cut(s)	40, 113, 299, 466, 515, 641
AjnI	CCWGG	1 cut(s)	409
AleI	CACNNNNGTG	1 cut(s)	923
AluBI	AGCT	7 cut(s)	45, 85, 215, 271, 302, 604, 893
AluI	AGCT	7 cut(s)	45, 85, 215, 271, 302, 604, 893
AlwI	GGATC	1 cut(s)	432
AoxI	GGCC	3 cut(s)	3, 72, 386
ApeKI	GCWGC	3 cut(s)	188, 604, 679
ApoI	RAATTY	1 cut(s)	988
ArsI	GACNNNNNNTTYG	2 cut(s)	601, 633
AseI	ATTAAT	1 cut(s)	969
AspS9I	GGNCC	1 cut(s)	358
AsuC2I	CCSGG	1 cut(s)	172
AsuHPI	GGTGA	1 cut(s)	1009
AsuII	TTCGAA	1 cut(s)	811
AvaII	GGWCC	1 cut(s)	358
BanI	GGYRCC	2 cut(s)	320, 872
BanII	GRGCYC	1 cut(s)	54
BbvI	GCAGC	3 cut(s)	175, 591, 691
BccI	CCATC	1 cut(s)	958
BceAI	ACGGC	3 cut(s)	37, 59, 682
BcgI	CGANNNNNNTGC	4 cut(s)	59, 93, 668, 702
BciT130I	CCWGG	1 cut(s)	411
BciVI	GTATCC	1 cut(s)	442
BcnI	CCSGG	1 cut(s)	172
BfaI	CTAG	4 cut(s)	17, 137, 264, 479
BfuI	GTATCC	1 cut(s)	442
BisI	GCNGC	3 cut(s)	189, 605, 680
BlsI	GCNGC	3 cut(s)	190, 606, 681
Bme1390I	CCNGG	2 cut(s)	172, 411
Bme18I	GGWCC	1 cut(s)	358
BmgT120I	GGNCC	1 cut(s)	358
BmiI	GGNNCC	3 cut(s)	322, 626, 874
BmrFI	CCNGG	2 cut(s)	172, 411
BmsI	GCATC	3 cut(s)	656, 772, 795
BpmI	CTGGAG	1 cut(s)	915
Bpu14I	TTCGAA	1 cut(s)	811
BpuMI	CCSGG	1 cut(s)	172
BsaHI	GRCGYC	1 cut(s)	415
Bsc4I	CCNNNNNNNGG	5 cut(s)	171, 264, 265, 709, 842
Bse1I	ACTGG	2 cut(s)	95, 856
BseBI	CCWGG	1 cut(s)	411
BseGI	GGATG	1 cut(s)	543
BseLI	CCNNNNNNNGG	5 cut(s)	171, 264, 265, 709, 842
BseMII	CTCAG	2 cut(s)	279, 729
BseNI	ACTGG	2 cut(s)	95, 856
BseRI	GAGGAG	2 cut(s)	219, 360
BseXI	GCAGC	3 cut(s)	175, 591, 691
BseYI	CCCAGC	1 cut(s)	702
BsgI	GTGCAG	1 cut(s)	901
Bsh1236I	CGCG	1 cut(s)	552
BshFI	GGCC	3 cut(s)	5, 74, 388
BshNI	GGYRCC	2 cut(s)	320, 872
BsiSI	CCGG	1 cut(s)	171
BslFI	GGGAC	1 cut(s)	685
BslI	CCNNNNNNNGG	5 cut(s)	171, 264, 265, 709, 842
BsmFI	GGGAC	1 cut(s)	685
BsnI	GGCC	3 cut(s)	5, 74, 388
Bsp119I	TTCGAA	1 cut(s)	811
Bsp1286I	GDGCHC	1 cut(s)	54
Bsp1407I	TGTACA	1 cut(s)	752
Bsp143I	GATC	2 cut(s)	153, 424
Bsp68I	TCGCGA	1 cut(s)	552
BspACI	CCGC	2 cut(s)	186, 330
BspANI	GGCC	3 cut(s)	5, 74, 388
BspCNI	CTCAG	2 cut(s)	280, 730
BspFNI	CGCG	1 cut(s)	552
BspLI	GGNNCC	3 cut(s)	322, 626, 874
BspPI	GGATC	1 cut(s)	432
BspT104I	TTCGAA	1 cut(s)	811
BspT107I	GGYRCC	2 cut(s)	320, 872
BsrGI	TGTACA	1 cut(s)	752
BsrI	ACTGG	2 cut(s)	95, 856
BssMI	GATC	2 cut(s)	153, 424
BssNI	GRCGYC	1 cut(s)	415
Bst2UI	CCWGG	1 cut(s)	411
Bst4CI	ACNGT	2 cut(s)	664, 716
Bst6I	CTCTTC	1 cut(s)	459
BstACI	GRCGYC	1 cut(s)	415
BstAPI	GCANNNNNTGC	1 cut(s)	242
BstAUI	TGTACA	1 cut(s)	752
BstBI	TTCGAA	1 cut(s)	811
BstC8I	GCNNGC	4 cut(s)	213, 247, 273, 378
BstDEI	CTNAG	4 cut(s)	288, 620, 738, 993
BstF5I	GGATG	1 cut(s)	543
BstFNI	CGCG	1 cut(s)	552
BstKTI	GATC	2 cut(s)	156, 427
BstMBI	GATC	2 cut(s)	153, 424
BstMWI	GCNNNNNNNGC	5 cut(s)	91, 194, 242, 329, 703
BstNI	CCWGG	1 cut(s)	411
BstNSI	RCATGY	1 cut(s)	780
BstSCI	CCNGG	2 cut(s)	170, 409
BstUI	CGCG	1 cut(s)	552
BstV1I	GCAGC	3 cut(s)	175, 591, 691
BsuI	GTATCC	1 cut(s)	442
BsuRI	GGCC	3 cut(s)	5, 74, 388
BtsCI	GGATG	1 cut(s)	543
BtsI	GCAGTG	1 cut(s)	339
BtsIMutI	CAGTG	2 cut(s)	339, 918
BtuMI	TCGCGA	1 cut(s)	552
Cac8I	GCNNGC	4 cut(s)	213, 247, 273, 378
Cfr13I	GGNCC	1 cut(s)	358
CseI	GACGC	1 cut(s)	423
Csp6I	GTAC	3 cut(s)	753, 774, 908
CviAII	CATG	6 cut(s)	131, 233, 421, 428, 583, 777
CviQI	GTAC	3 cut(s)	753, 774, 908
DdeI	CTNAG	4 cut(s)	288, 620, 738, 993
DpnI	GATC	2 cut(s)	155, 426
DpnII	GATC	2 cut(s)	153, 424
DraI	TTTAAA	1 cut(s)	889
DrdI	GACNNNNNNGTC	2 cut(s)	26, 65
DseDI	GACNNNNNNGTC	2 cut(s)	26, 65
Eam1104I	CTCTTC	1 cut(s)	459
EarI	CTCTTC	1 cut(s)	459
Eco24I	GRGCYC	1 cut(s)	54
Eco32I	GATATC	1 cut(s)	285
Eco47I	GGWCC	1 cut(s)	358
EcoRII	CCWGG	1 cut(s)	409
EcoRV	GATATC	1 cut(s)	285
EcoT22I	ATGCAT	1 cut(s)	238
EcoT38I	GRGCYC	1 cut(s)	54
FaeI	CATG	6 cut(s)	134, 236, 424, 431, 586, 780
FaqI	GGGAC	1 cut(s)	685
FatI	CATG	6 cut(s)	130, 232, 420, 427, 582, 776
FauNDI	CATATG	1 cut(s)	849
Fnu4HI	GCNGC	3 cut(s)	189, 605, 680
FokI	GGATG	1 cut(s)	530
FriOI	GRGCYC	1 cut(s)	54
Fsp4HI	GCNGC	3 cut(s)	189, 605, 680
FspBI	CTAG	4 cut(s)	17, 137, 264, 479
GluI	GCNGC	3 cut(s)	189, 605, 680
GsaI	CCCAGC	1 cut(s)	706
GsuI	CTGGAG	1 cut(s)	915
HaeIII	GGCC	3 cut(s)	5, 74, 388
HapII	CCGG	1 cut(s)	171
HgaI	GACGC	1 cut(s)	423
Hin1I	GRCGYC	1 cut(s)	415
Hin1II	CATG	6 cut(s)	134, 236, 424, 431, 586, 780
HindIII	AAGCTT	1 cut(s)	300
HinfI	GANTC	2 cut(s)	159, 224
HpaII	CCGG	1 cut(s)	171
HphI	GGTGA	1 cut(s)	1009
Hpy188I	TCNGA	6 cut(s)	10, 158, 282, 289, 537, 735
Hpy188III	TCNNGA	5 cut(s)	31, 40, 479, 551, 598
Hpy99I	CGWCG	1 cut(s)	14
HpyAV	CCTTC	3 cut(s)	46, 134, 209
HpyCH4III	ACNGT	2 cut(s)	664, 716
HpyCH4V	TGCA	7 cut(s)	211, 236, 275, 380, 607, 785, 918
HpyF10VI	GCNNNNNNNGC	5 cut(s)	91, 194, 242, 329, 703
HpyF3I	CTNAG	4 cut(s)	288, 620, 738, 993
Hsp92I	GRCGYC	1 cut(s)	415
Hsp92II	CATG	6 cut(s)	134, 236, 424, 431, 586, 780
Kzo9I	GATC	2 cut(s)	153, 424
LmnI	GCTCC	1 cut(s)	268
LpnPI	CCDG	9 cut(s)	71, 76, 184, 396, 423, 642, 716, 869, 879
Lsp1109I	GCAGC	3 cut(s)	175, 591, 691
LweI	GCATC	3 cut(s)	656, 772, 795
MaeI	CTAG	4 cut(s)	17, 137, 264, 479
MalI	GATC	2 cut(s)	155, 426
MboI	GATC	2 cut(s)	153, 424
MboII	GAAGA	2 cut(s)	446, 646
MfeI	CAATTG	1 cut(s)	62
MhlI	GDGCHC	1 cut(s)	54
MluCI	AATT	4 cut(s)	62, 276, 970, 988
MlyI	GAGTC	1 cut(s)	153
MmeI	TCCRAC	4 cut(s)	33, 322, 385, 459
Mph1103I	ATGCAT	1 cut(s)	238
MseI	TTAA	4 cut(s)	501, 878, 888, 969
MslI	CAYNNNNRTG	1 cut(s)	923
MspA1I	CMGCKG	1 cut(s)	188
MspI	CCGG	1 cut(s)	171
MspR9I	CCNGG	2 cut(s)	172, 411
MunI	CAATTG	1 cut(s)	62
MvaI	CCWGG	1 cut(s)	411
MvnI	CGCG	1 cut(s)	552
MwoI	GCNNNNNNNGC	5 cut(s)	91, 194, 242, 329, 703
NciI	CCSGG	1 cut(s)	172
NdeI	CATATG	1 cut(s)	849
NdeII	GATC	2 cut(s)	153, 424
NlaIII	CATG	6 cut(s)	134, 236, 424, 431, 586, 780
NlaIV	GGNNCC	3 cut(s)	322, 626, 874
NruI	TCGCGA	1 cut(s)	552
NsiI	ATGCAT	1 cut(s)	238
NspI	RCATGY	1 cut(s)	780
NspV	TTCGAA	1 cut(s)	811
OliI	CACNNNNGTG	1 cut(s)	923
PciI	ACATGT	1 cut(s)	776
PfeI	GAWTC	1 cut(s)	224
PkrI	GCNGC	3 cut(s)	190, 606, 681
PleI	GAGTC	1 cut(s)	153
PpsI	GAGTC	1 cut(s)	153
PscI	ACATGT	1 cut(s)	776
PshBI	ATTAAT	1 cut(s)	969
Psp6I	CCWGG	1 cut(s)	409
PspFI	CCCAGC	1 cut(s)	702
PspGI	CCWGG	1 cut(s)	409
PspN4I	GGNNCC	3 cut(s)	322, 626, 874
PspPI	GGNCC	1 cut(s)	358
RruI	TCGCGA	1 cut(s)	552
RsaI	GTAC	3 cut(s)	754, 775, 909
RsaNI	GTAC	3 cut(s)	753, 774, 908
RseI	CAYNNNNRTG	1 cut(s)	923
SaqAI	TTAA	4 cut(s)	501, 878, 888, 969
SatI	GCNGC	3 cut(s)	189, 605, 680
Sau3AI	GATC	2 cut(s)	153, 424
Sau96I	GGNCC	1 cut(s)	358
SchI	GAGTC	1 cut(s)	153
ScrFI	CCNGG	2 cut(s)	172, 411
SduI	GDGCHC	1 cut(s)	54
SfaNI	GCATC	3 cut(s)	656, 772, 795
SfuI	TTCGAA	1 cut(s)	811
SinI	GGWCC	1 cut(s)	358
SmiMI	CAYNNNNRTG	1 cut(s)	923
Sse9I	AATT	4 cut(s)	62, 276, 970, 988
SsiI	CCGC	2 cut(s)	186, 330
SspI	AATATT	1 cut(s)	656
SspMI	CTAG	4 cut(s)	17, 137, 264, 479
StyD4I	CCNGG	2 cut(s)	170, 409
TaaI	ACNGT	2 cut(s)	664, 716
TaqI	TCGA	3 cut(s)	69, 117, 811
TasI	AATT	4 cut(s)	62, 276, 970, 988
TatI	WGTACW	2 cut(s)	752, 907
TfiI	GAWTC	1 cut(s)	224
Tru1I	TTAA	4 cut(s)	501, 878, 888, 969
Tru9I	TTAA	4 cut(s)	501, 878, 888, 969
TscAI	CASTG	2 cut(s)	339, 925
TseI	GCWGC	3 cut(s)	188, 604, 679
TspGWI	ACGGA	1 cut(s)	571
TspRI	CASTG	2 cut(s)	339, 925
VpaK11BI	GGWCC	1 cut(s)	358
VspI	ATTAAT	1 cut(s)	969
XapI	RAATTY	1 cut(s)	988
XbaI	TCTAGA	1 cut(s)	478
XceI	RCATGY	1 cut(s)	780
XspI	CTAG	4 cut(s)	17, 137, 264, 479
Zsp2I	ATGCAT	1 cut(s)	238

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