Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001022

Physical Location & Seq

Genomic Coordinates Forward (+)

16278825 .. 16281790

Gene Structure 2966 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG183700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 717 bp

ATGTGGCTAAACATTTGTGCGCAGGATGGATTTAAAGATGATTCTTTAAGGATAAAAAAGGAGATAGAGAAATTTGACACTCACTGCCAGGTGCTCCTGTTTTCTGCTGCATTCGATGAAACAGTCAGAAATTTCATCTCAAGGGTGGTGAAGGACAAGAATGAACTATTTGTTAAGAAAGAAGAGCTATCTTTGGCGGCTGTGAAGCACTACAAGGTCTATTTCCCTGGTGAACTAACCAAAATTGATGTGATCAAAACCAAGATATTCGACCTAGGGGAGAACATTGGACAGCGAATCATTTTTGTAGGGTCAAAAGCTAGTGCAAGAGTGTTGCATAAACAACTTCATGAGGATGGTTATGCAGTTACAAATGTTCATGGTGCCCTCACTCCTGAACATAGAGACAAGACGATTAAAGAATTCAGAGAGGGTTACACCCAAGTTCTTATTGCAACTGACATGCTTGCTCGAGGCTTTGACAGCCAGCAGGTTAACTGTGTTGTCAATTATGATCTTCCAATAAAGTGTCAAGTTGGTCTAGGAATCAAGCAGCTCCAGAGCCTGATTATGAGGTGTACTTGCATAGATGTGGTCGGGCAGGGCGTTTTGGCCGCAAGGGAGCAGTGTTTAACTTGCTTTGCCATGATTCTGATCAACAACTCATGGGAAAAATTGAGCAGCATTATAGCATTCAAGTACCAGAGGTTAACATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005730 GO:0005737 GO:0005886 GO:0006139 GO:0006403 GO:0006405 GO:0006406 GO:0006611 GO:0006725 GO:0006807 GO:0006810 GO:0006886 GO:0006913 GO:0006950 GO:0008026 GO:0008104 GO:0008150 GO:0008152 GO:0008186 GO:0009266 GO:0009408 GO:0009409 GO:0009628 GO:0009719 GO:0009725 GO:0009737 GO:0009987 GO:0010033 GO:0010467 GO:0010501 GO:0012505 GO:0015031 GO:0015833 GO:0015931 GO:0016020 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0016973 GO:0017111 GO:0031503 GO:0031967 GO:0031974 GO:0031975 GO:0031981 GO:0033036 GO:0033993 GO:0034613 GO:0034641 GO:0042221 GO:0042623 GO:0042886 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:0045184 GO:0046483 GO:0046907 GO:0050657 GO:0050658 GO:0050896 GO:0051028 GO:0051168 GO:0051169 GO:0051179 GO:0051234 GO:0051236 GO:0051641 GO:0051649 GO:0070013 GO:0070035 GO:0070727 GO:0071166 GO:0071426 GO:0071427 GO:0071702 GO:0071704 GO:0071705 GO:0071944 GO:0090304 GO:0097305 GO:0140098 GO:1901360 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

238

Amino Acids

27.1

Weight (kDa)

8.55

Isoelectric Point (pI)

28.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C	PF00271	87 - 181	5.8e-19	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: OG0001022)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G53110
fragaria_vesca	FvH4_6g17230 FvH4_6g17230 FvH4_6g17230 FvH4_6g17280 FvH4_6g17280
malus_domestica	MD12G1102600.v1.1 MD14G1096800.v1.1
prunus_persica	Prupe.3G009100_v2.0.a1 Prupe.7G122600_v2.0.a1
pyrus_communis	pycom03g08760 pycom12g10060 pycom14g09450
rosa_chinensis	RchiOBHm_Chr3g0471311 RchiOBHm_Chr3g0471321 RchiOBHm_Chr3g0471361 RchiOBHm_Chr3g0471391
rosa_laevigata	RLG00000024181 RLG00000024187 RLG00000024188
rosa_multiflora	Rmu_sc0006582.1_g000015 Rmu_sc0006582.1_g000018 Rmu_sc0009082.1_g000003 Rmu_sc0010513.1_g000003 Rmu_sc0015755.1_g000002 Rmu_sc0030425.1_g000001
rosa_roxburghii	Rroxscaffold_6G00409980 Rroxscaffold_6G00410000 Rroxscaffold_6G00410060 Rroxscaffold_6G00410080
rosa_rugosa	Rorug03G0117100 Rorug03G0117100 Rorug03G0117100 Rorug03G0117400 Rorug03G0117500 Rorug03G0117500
rosa_samantha	Rh3AG166500 Rh3AG166600 Rh3AG166700 Rh3AG167100 Rh3BG191900 Rh3BG192000 Rh3BG192100 Rh3BG192400 Rh3BG192500 Rh3BG192800 Rh3CG182200 Rh3CG182300 Rh3CG182400 Rh3CG182700 Rh3CG182800 Rh3CG183200 Rh3DG182700 Rh3DG183100 Rh3DG183200 Rh3DG183700 Rh3DG183800
rosa_wichuraiana	Rw3G015670 Rw3G015680 Rw3G015730 Rw3G015760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	21
Acc36I	ACCTGC	1 cut(s)	481
AccB1I	GGYRCC	1 cut(s)	383
AciI	CCGC	2 cut(s)	197, 615
AcoI	YGGCCR	1 cut(s)	612
AcsI	RAATTY	3 cut(s)	71, 130, 422
AfaI	GTAC	2 cut(s)	580, 701
AgsI	TTSAA	1 cut(s)	697
AjnI	CCWGG	2 cut(s)	87, 226
AluBI	AGCT	3 cut(s)	187, 320, 556
AluI	AGCT	3 cut(s)	187, 320, 556
Alw21I	GWGCWC	1 cut(s)	96
Alw26I	GTCTC	1 cut(s)	399
AlwNI	CAGNNNCTG	1 cut(s)	565
Ama87I	CYCGRG	1 cut(s)	471
AoxI	GGCC	1 cut(s)	612
ApeKI	GCWGC	3 cut(s)	107, 553, 681
ApoI	RAATTY	3 cut(s)	71, 130, 422
AspA2I	CCTAGG	1 cut(s)	274
AspLEI	GCGC	1 cut(s)	22
AsuHPI	GGTGA	2 cut(s)	160, 242
AvaI	CYCGRG	1 cut(s)	471
AvrII	CCTAGG	1 cut(s)	274
BaeGI	GKGCMC	1 cut(s)	388
BanI	GGYRCC	1 cut(s)	383
Bbv12I	GWGCWC	1 cut(s)	96
BbvI	GCAGC	3 cut(s)	94, 565, 693
BccI	CCATC	2 cut(s)	20, 350
BciT130I	CCWGG	2 cut(s)	89, 228
BclI	TGATCA	2 cut(s)	252, 654
BcoDI	GTCTC	1 cut(s)	399
BfaI	CTAG	3 cut(s)	275, 321, 542
BfuAI	ACCTGC	1 cut(s)	481
BisI	GCNGC	5 cut(s)	108, 198, 554, 615, 682
BlnI	CCTAGG	1 cut(s)	274
BlsI	GCNGC	5 cut(s)	109, 199, 555, 616, 683
Bme1390I	CCNGG	2 cut(s)	89, 228
BmeT110I	CYCGRG	1 cut(s)	471
BmiI	GGNNCC	1 cut(s)	385
BmrFI	CCNGG	2 cut(s)	89, 228
BpmI	CTGGAG	1 cut(s)	542
BpuEI	CTTGAG	1 cut(s)	124
BsaBI	GATNNNNATC	1 cut(s)	653
BsaJI	CCNNGG	2 cut(s)	226, 274
Bse8I	GATNNNNATC	1 cut(s)	653
BseBI	CCWGG	2 cut(s)	89, 228
BseDI	CCNNGG	2 cut(s)	226, 274
BseGI	GGATG	2 cut(s)	31, 361
BseJI	GATNNNNATC	1 cut(s)	653
BseSI	GKGCMC	1 cut(s)	388
BseXI	GCAGC	3 cut(s)	94, 565, 693
BshFI	GGCC	1 cut(s)	614
BshNI	GGYRCC	1 cut(s)	383
BsiHKAI	GWGCWC	1 cut(s)	96
BsiHKCI	CYCGRG	1 cut(s)	471
BsmAI	GTCTC	1 cut(s)	399
BsmI	GAATGC	2 cut(s)	110, 692
BsnI	GGCC	1 cut(s)	614
BsoBI	CYCGRG	1 cut(s)	471
Bsp1286I	GDGCHC	2 cut(s)	96, 388
Bsp143I	GATC	3 cut(s)	252, 514, 654
BspACI	CCGC	2 cut(s)	197, 615
BspANI	GGCC	1 cut(s)	614
BspHI	TCATGA	1 cut(s)	349
BspLI	GGNNCC	1 cut(s)	385
BspMI	ACCTGC	1 cut(s)	481
BspQI	GCTCTTC	1 cut(s)	177
BspT107I	GGYRCC	1 cut(s)	383
BssECI	CCNNGG	2 cut(s)	226, 274
BssMI	GATC	3 cut(s)	252, 514, 654
BssT1I	CCWWGG	1 cut(s)	274
Bst2UI	CCWGG	2 cut(s)	89, 228
Bst4CI	ACNGT	2 cut(s)	124, 500
Bst6I	CTCTTC	1 cut(s)	177
BstC8I	GCNNGC	2 cut(s)	468, 488
BstF5I	GGATG	2 cut(s)	31, 361
BstHHI	GCGC	1 cut(s)	22
BstKTI	GATC	3 cut(s)	255, 517, 657
BstMAI	GTCTC	1 cut(s)	399
BstMBI	GATC	3 cut(s)	252, 514, 654
BstMWI	GCNNNNNNNGC	1 cut(s)	483
BstNI	CCWGG	2 cut(s)	89, 228
BstNSI	RCATGY	1 cut(s)	466
BstSCI	CCNGG	2 cut(s)	87, 226
BstSLI	GKGCMC	1 cut(s)	388
BstV1I	GCAGC	3 cut(s)	94, 565, 693
BsuRI	GGCC	1 cut(s)	614
BtsCI	GGATG	2 cut(s)	31, 361
BtsI	GCAGTG	2 cut(s)	82, 632
BtsIMutI	CAGTG	2 cut(s)	82, 632
BveI	ACCTGC	1 cut(s)	481
Cac8I	GCNNGC	2 cut(s)	468, 488
CaiI	CAGNNNCTG	1 cut(s)	565
CciI	TCATGA	1 cut(s)	349
CfoI	GCGC	1 cut(s)	22
Csp6I	GTAC	2 cut(s)	579, 700
CviAII	CATG	5 cut(s)	350, 380, 463, 646, 666
CviJI	RGCY	9 cut(s)	7, 187, 200, 320, 477, 486, 556, 564, 614
CviKI_1	RGCY	9 cut(s)	7, 187, 200, 320, 477, 486, 556, 564, 614
CviQI	GTAC	2 cut(s)	579, 700
DpnI	GATC	3 cut(s)	254, 516, 656
DpnII	GATC	3 cut(s)	252, 514, 654
DraI	TTTAAA	1 cut(s)	34
EaeI	YGGCCR	1 cut(s)	612
Eam1104I	CTCTTC	1 cut(s)	177
EarI	CTCTTC	1 cut(s)	177
Eco130I	CCWWGG	1 cut(s)	274
Eco88I	CYCGRG	1 cut(s)	471
EcoRI	GAATTC	1 cut(s)	422
EcoRII	CCWGG	2 cut(s)	87, 226
EcoT14I	CCWWGG	1 cut(s)	274
ErhI	CCWWGG	1 cut(s)	274
FaeI	CATG	5 cut(s)	353, 383, 466, 649, 669
FatI	CATG	5 cut(s)	349, 379, 462, 645, 665
FbaI	TGATCA	2 cut(s)	252, 654
Fnu4HI	GCNGC	5 cut(s)	108, 198, 554, 615, 682
FokI	GGATG	2 cut(s)	38, 368
Fsp4HI	GCNGC	5 cut(s)	108, 198, 554, 615, 682
FspBI	CTAG	3 cut(s)	275, 321, 542
FspI	TGCGCA	1 cut(s)	21
GlaI	GCGC	1 cut(s)	21
GluI	GCNGC	5 cut(s)	108, 198, 554, 615, 682
GsuI	CTGGAG	1 cut(s)	542
HaeIII	GGCC	1 cut(s)	614
HhaI	GCGC	1 cut(s)	22
Hin1II	CATG	5 cut(s)	353, 383, 466, 649, 669
Hin6I	GCGC	1 cut(s)	20
HinP1I	GCGC	1 cut(s)	20
HincII	GTYRAC	2 cut(s)	496, 711
HindII	GTYRAC	2 cut(s)	496, 711
HinfI	GANTC	4 cut(s)	41, 297, 546, 649
HpaI	GTTAAC	2 cut(s)	496, 711
HphI	GGTGA	2 cut(s)	160, 242
Hpy166II	GTNNAC	4 cut(s)	233, 496, 579, 711
Hpy188I	TCNGA	3 cut(s)	128, 428, 654
Hpy188III	TCNNGA	3 cut(s)	350, 395, 559
Hpy8I	GTNNAC	4 cut(s)	233, 496, 579, 711
HpyAV	CCTTC	1 cut(s)	145
HpyCH4III	ACNGT	2 cut(s)	124, 500
HpyCH4V	TGCA	6 cut(s)	110, 326, 337, 365, 455, 585
HpyF10VI	GCNNNNNNNGC	1 cut(s)	483
Hsp92II	CATG	5 cut(s)	353, 383, 466, 649, 669
HspAI	GCGC	1 cut(s)	20
Ksp22I	TGATCA	2 cut(s)	252, 654
KspAI	GTTAAC	2 cut(s)	496, 711
Kzo9I	GATC	3 cut(s)	252, 514, 654
LguI	GCTCTTC	1 cut(s)	177
LmnI	GCTCC	3 cut(s)	99, 561, 622
Lsp1109I	GCAGC	3 cut(s)	94, 565, 693
MaeI	CTAG	3 cut(s)	275, 321, 542
MaeIII	GTNAC	2 cut(s)	367, 434
MalI	GATC	3 cut(s)	254, 516, 656
MboI	GATC	3 cut(s)	252, 514, 654
MboII	GAAGA	2 cut(s)	194, 509
MhlI	GDGCHC	2 cut(s)	96, 388
MluCI	AATT	6 cut(s)	71, 130, 243, 422, 508, 674
MnlI	CCTC	6 cut(s)	346, 398, 424, 467, 567, 699
MseI	TTAA	7 cut(s)	33, 47, 174, 417, 495, 632, 710
MslI	CAYNNNNRTG	2 cut(s)	354, 590
MspR9I	CCNGG	2 cut(s)	89, 228
Mva1269I	GAATGC	2 cut(s)	110, 692
MvaI	CCWGG	2 cut(s)	89, 228
MwoI	GCNNNNNNNGC	1 cut(s)	483
NdeII	GATC	3 cut(s)	252, 514, 654
NlaIII	CATG	5 cut(s)	353, 383, 466, 649, 669
NlaIV	GGNNCC	1 cut(s)	385
NsbI	TGCGCA	1 cut(s)	21
NspI	RCATGY	1 cut(s)	466
PaeR7I	CTCGAG	1 cut(s)	471
PagI	TCATGA	1 cut(s)	349
PciSI	GCTCTTC	1 cut(s)	177
PcsI	WCGNNNNNNNCGW	1 cut(s)	603
PctI	GAATGC	2 cut(s)	110, 692
PfeI	GAWTC	4 cut(s)	41, 297, 546, 649
PkrI	GCNGC	5 cut(s)	109, 199, 555, 616, 683
Psp6I	CCWGG	2 cut(s)	87, 226
PspGI	CCWGG	2 cut(s)	87, 226
PspN4I	GGNNCC	1 cut(s)	385
PspXI	VCTCGAGB	1 cut(s)	471
PstNI	CAGNNNCTG	1 cut(s)	565
RsaI	GTAC	2 cut(s)	580, 701
RsaNI	GTAC	2 cut(s)	579, 700
RseI	CAYNNNNRTG	2 cut(s)	354, 590
SapI	GCTCTTC	1 cut(s)	177
SaqAI	TTAA	7 cut(s)	33, 47, 174, 417, 495, 632, 710
SatI	GCNGC	5 cut(s)	108, 198, 554, 615, 682
Sau3AI	GATC	3 cut(s)	252, 514, 654
ScrFI	CCNGG	2 cut(s)	89, 228
SduI	GDGCHC	2 cut(s)	96, 388
SetI	ASST	9 cut(s)	93, 189, 219, 276, 322, 495, 558, 578, 710
Sfr274I	CTCGAG	1 cut(s)	471
SlaI	CTCGAG	1 cut(s)	471
SmiMI	CAYNNNNRTG	2 cut(s)	354, 590
SmlI	CTYRAG	2 cut(s)	139, 471
SmoI	CTYRAG	2 cut(s)	139, 471
Sse9I	AATT	6 cut(s)	71, 130, 243, 422, 508, 674
SsiI	CCGC	2 cut(s)	197, 615
SspMI	CTAG	3 cut(s)	275, 321, 542
StyD4I	CCNGG	2 cut(s)	87, 226
StyI	CCWWGG	1 cut(s)	274
TaaI	ACNGT	2 cut(s)	124, 500
TaqI	TCGA	3 cut(s)	114, 270, 472
TasI	AATT	6 cut(s)	71, 130, 243, 422, 508, 674
TatI	WGTACW	1 cut(s)	578
TauI	GCSGC	2 cut(s)	200, 617
TfiI	GAWTC	4 cut(s)	41, 297, 546, 649
Tru1I	TTAA	7 cut(s)	33, 47, 174, 417, 495, 632, 710
Tru9I	TTAA	7 cut(s)	33, 47, 174, 417, 495, 632, 710
TscAI	CASTG	2 cut(s)	89, 632
TseI	GCWGC	3 cut(s)	107, 553, 681
TspDTI	ATGAA	5 cut(s)	124, 132, 177, 338, 368
TspRI	CASTG	2 cut(s)	89, 632
XapI	RAATTY	3 cut(s)	71, 130, 422
XceI	RCATGY	1 cut(s)	466
XhoI	CTCGAG	1 cut(s)	471
XmaJI	CCTAGG	1 cut(s)	274
XspI	CTAG	3 cut(s)	275, 321, 542

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