Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0001022

Physical Location & Seq

Genomic Coordinates Reverse (-)

16998551 .. 17001251

Gene Structure 2701 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG192000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 909 bp

ATGGAGAAGGAAAAATCTACACCAGTGAAGTACCGGCCTCTGGTATCAGCACAAATTGTGATTGGAACACCTGGTACAGTTAAGAATTTGATGTCATACAAGAAGCTGGGTGTAAGCGGTGTGAAGATTCTTGTTTTCGATGAAGCTGATCACATGCTGGCTGAGGATGGATTTAAAGATGATTCTTTAAGGATAAAAAAGGAGATAGAGAAATTTGACACTCACTGCCAGGTGCTCCAGTTTTCTGCTACATTCGATGAAACAGTCAGAAATTTCATCTCAAGGGTGGTGAAGGACAAGAATGAACTATTTGTTAAGAAAGAAGAGCTATCCTTGGCAGCTGTGAAGCAGTACAAGGTCTACTGCCCTGATGAACTAACCAAAATTGATGTGATCAAAACCAAGATATTTGACCTAGGGGAGAACATTGGACAGCGAATCATTTTTGTAGGGTCAAAAGCTAGTGCAAGAATGTTGCATAAACAACTTCATGAGGATGGTTATGCAGTTACAAATGTTCATGGTGCCCTCACTCCTGAACATAGAGACAAGACGATTAAAGAATTCAGAGAGGGTTACACCCAAGTTCTTATTGCAACTGACATGCTTGCTCGAGGCTTTGACAGCCAGCAGGTTAACTGTGTTGTCAATTATGATCTTCCAATAAAGTATCAAGCTTGGTCTAGGAAGCAAGCAGCTCCAGAGCCTGATTATGAGGTGTACTTGCATAGATGTGGTCGGGCAGGGCGTTTTGGCCGCAAGGGAGCTGTGTTTAACTTGCTGTGCCATGATTCTGATCAACAACTCATGGGAAAAATTGAGCAGCATTATAGCATTCAAGTACCGGAGGTTAACATAAGTGAAGAAGCTTTTGACGATGCTCTCAAGTTAGCGGGATTGAAGGAATGA

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

302

Amino Acids

34.35

Weight (kDa)

7.12

Isoelectric Point (pI)

31.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	11 - 91	9.6e-13	DEAD/DEAH box helicase
Helicase_C	PF00271	134 - 252	2.5e-24	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: 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)
Acc36I	ACCTGC	1 cut(s)	622
AccB1I	GGYRCC	1 cut(s)	524
AccI	GTMKAC	1 cut(s)	360
AciI	CCGC	3 cut(s)	117, 757, 893
AcoI	YGGCCR	1 cut(s)	754
AcsI	RAATTY	4 cut(s)	85, 212, 271, 563
AfaI	GTAC	5 cut(s)	32, 76, 353, 722, 843
AfiI	CCNNNNNNNGG	1 cut(s)	40
AgsI	TTSAA	2 cut(s)	839, 901
AjnI	CCWGG	2 cut(s)	70, 228
AluBI	AGCT	9 cut(s)	106, 146, 328, 341, 461, 677, 698, 767, 869
AluI	AGCT	9 cut(s)	106, 146, 328, 341, 461, 677, 698, 767, 869
Alw21I	GWGCWC	1 cut(s)	237
Alw26I	GTCTC	1 cut(s)	540
AlwNI	CAGNNNCTG	1 cut(s)	707
Ama87I	CYCGRG	1 cut(s)	612
AoxI	GGCC	2 cut(s)	35, 754
ApeKI	GCWGC	3 cut(s)	338, 695, 823
ApoI	RAATTY	4 cut(s)	85, 212, 271, 563
AspA2I	CCTAGG	1 cut(s)	415
AsuHPI	GGTGA	1 cut(s)	301
AvaI	CYCGRG	1 cut(s)	612
AvrII	CCTAGG	1 cut(s)	415
BaeGI	GKGCMC	1 cut(s)	529
BanI	GGYRCC	1 cut(s)	524
Bbv12I	GWGCWC	1 cut(s)	237
BbvCI	CCTCAGC	1 cut(s)	162
BbvI	GCAGC	3 cut(s)	350, 707, 835
BccI	CCATC	2 cut(s)	161, 491
BciT130I	CCWGG	2 cut(s)	72, 230
BclI	TGATCA	3 cut(s)	148, 393, 796
BcoDI	GTCTC	1 cut(s)	540
BfaI	CTAG	3 cut(s)	416, 462, 684
BfuAI	ACCTGC	1 cut(s)	622
BisI	GCNGC	4 cut(s)	339, 696, 757, 824
BlnI	CCTAGG	1 cut(s)	415
BlsI	GCNGC	4 cut(s)	340, 697, 758, 825
Bme1390I	CCNGG	2 cut(s)	72, 230
BmeT110I	CYCGRG	1 cut(s)	612
BmiI	GGNNCC	1 cut(s)	526
BmrFI	CCNGG	2 cut(s)	72, 230
BmsI	GCATC	1 cut(s)	868
BpmI	CTGGAG	2 cut(s)	221, 684
Bpu10I	CCTNAGC	1 cut(s)	162
BpuEI	CTTGAG	2 cut(s)	265, 869
BsaBI	GATNNNNATC	1 cut(s)	795
BsaJI	CCNNGG	2 cut(s)	333, 415
BsaWI	WCCGGW	1 cut(s)	844
Bsc4I	CCNNNNNNNGG	1 cut(s)	40
Bse118I	RCCGGY	1 cut(s)	33
Bse1I	ACTGG	2 cut(s)	23, 238
Bse8I	GATNNNNATC	1 cut(s)	795
BseBI	CCWGG	2 cut(s)	72, 230
BseDI	CCNNGG	2 cut(s)	333, 415
BseGI	GGATG	2 cut(s)	172, 502
BseJI	GATNNNNATC	1 cut(s)	795
BseLI	CCNNNNNNNGG	1 cut(s)	40
BseMII	CTCAG	1 cut(s)	153
BseNI	ACTGG	2 cut(s)	23, 238
BseSI	GKGCMC	1 cut(s)	529
BseXI	GCAGC	3 cut(s)	350, 707, 835
BseYI	CCCAGC	1 cut(s)	106
BshFI	GGCC	2 cut(s)	37, 756
BshNI	GGYRCC	1 cut(s)	524
BsiHKAI	GWGCWC	1 cut(s)	237
BsiHKCI	CYCGRG	1 cut(s)	612
BsiSI	CCGG	2 cut(s)	34, 845
BslI	CCNNNNNNNGG	1 cut(s)	40
BsmAI	GTCTC	1 cut(s)	540
BsmI	GAATGC	1 cut(s)	834
BsnI	GGCC	2 cut(s)	37, 756
BsoBI	CYCGRG	1 cut(s)	612
Bsp1286I	GDGCHC	2 cut(s)	237, 529
Bsp143I	GATC	4 cut(s)	148, 393, 655, 796
BspACI	CCGC	3 cut(s)	117, 757, 893
BspANI	GGCC	2 cut(s)	37, 756
BspCNI	CTCAG	1 cut(s)	154
BspHI	TCATGA	1 cut(s)	490
BspLI	GGNNCC	1 cut(s)	526
BspMI	ACCTGC	1 cut(s)	622
BspQI	GCTCTTC	1 cut(s)	318
BspT107I	GGYRCC	1 cut(s)	524
BsrFI	RCCGGY	1 cut(s)	33
BsrI	ACTGG	2 cut(s)	23, 238
BssAI	RCCGGY	1 cut(s)	33
BssECI	CCNNGG	2 cut(s)	333, 415
BssMI	GATC	4 cut(s)	148, 393, 655, 796
BssT1I	CCWWGG	2 cut(s)	333, 415
Bst2UI	CCWGG	2 cut(s)	72, 230
Bst4CI	ACNGT	3 cut(s)	79, 265, 641
Bst6I	CTCTTC	1 cut(s)	318
BstC8I	GCNNGC	4 cut(s)	159, 609, 629, 693
BstDEI	CTNAG	1 cut(s)	162
BstF5I	GGATG	2 cut(s)	172, 502
BstKTI	GATC	4 cut(s)	151, 396, 658, 799
BstMAI	GTCTC	1 cut(s)	540
BstMBI	GATC	4 cut(s)	148, 393, 655, 796
BstMWI	GCNNNNNNNGC	1 cut(s)	624
BstNI	CCWGG	2 cut(s)	72, 230
BstNSI	RCATGY	2 cut(s)	157, 607
BstSCI	CCNGG	2 cut(s)	70, 228
BstSLI	GKGCMC	1 cut(s)	529
BstV1I	GCAGC	3 cut(s)	350, 707, 835
BsuRI	GGCC	2 cut(s)	37, 756
BtsCI	GGATG	2 cut(s)	172, 502
BtsI	GCAGTG	1 cut(s)	223
BtsIMutI	CAGTG	2 cut(s)	30, 223
BveI	ACCTGC	1 cut(s)	622
Cac8I	GCNNGC	4 cut(s)	159, 609, 629, 693
CaiI	CAGNNNCTG	1 cut(s)	707
CciI	TCATGA	1 cut(s)	490
Cfr10I	RCCGGY	1 cut(s)	33
CsiI	ACCWGGT	1 cut(s)	70
Csp6I	GTAC	5 cut(s)	31, 75, 352, 721, 842
CviAII	CATG	6 cut(s)	154, 491, 521, 604, 788, 808
CviQI	GTAC	5 cut(s)	31, 75, 352, 721, 842
DdeI	CTNAG	1 cut(s)	162
DpnI	GATC	4 cut(s)	150, 395, 657, 798
DpnII	GATC	4 cut(s)	148, 393, 655, 796
DraI	TTTAAA	1 cut(s)	175
EaeI	YGGCCR	1 cut(s)	754
Eam1104I	CTCTTC	1 cut(s)	318
EarI	CTCTTC	1 cut(s)	318
Eco130I	CCWWGG	2 cut(s)	333, 415
Eco88I	CYCGRG	1 cut(s)	612
EcoRI	GAATTC	1 cut(s)	563
EcoRII	CCWGG	2 cut(s)	70, 228
EcoT14I	CCWWGG	2 cut(s)	333, 415
ErhI	CCWWGG	2 cut(s)	333, 415
FaeI	CATG	6 cut(s)	157, 494, 524, 607, 791, 811
FatI	CATG	6 cut(s)	153, 490, 520, 603, 787, 807
FauI	CCCGC	1 cut(s)	886
FbaI	TGATCA	3 cut(s)	148, 393, 796
FblI	GTMKAC	1 cut(s)	360
Fnu4HI	GCNGC	4 cut(s)	339, 696, 757, 824
FokI	GGATG	2 cut(s)	179, 509
Fsp4HI	GCNGC	4 cut(s)	339, 696, 757, 824
FspBI	CTAG	3 cut(s)	416, 462, 684
GluI	GCNGC	4 cut(s)	339, 696, 757, 824
GsaI	CCCAGC	1 cut(s)	110
GsuI	CTGGAG	2 cut(s)	221, 684
HaeIII	GGCC	2 cut(s)	37, 756
HapII	CCGG	2 cut(s)	34, 845
Hin1II	CATG	6 cut(s)	157, 494, 524, 607, 791, 811
HincII	GTYRAC	2 cut(s)	637, 853
HindII	GTYRAC	2 cut(s)	637, 853
HindIII	AAGCTT	2 cut(s)	675, 867
HinfI	GANTC	4 cut(s)	127, 182, 438, 791
HpaI	GTTAAC	2 cut(s)	637, 853
HpaII	CCGG	2 cut(s)	34, 845
HphI	GGTGA	1 cut(s)	301
Hpy166II	GTNNAC	4 cut(s)	361, 637, 721, 853
Hpy188I	TCNGA	3 cut(s)	269, 569, 796
Hpy188III	TCNNGA	3 cut(s)	491, 536, 701
Hpy8I	GTNNAC	4 cut(s)	361, 637, 721, 853
HpyAV	CCTTC	2 cut(s)	286, 895
HpyCH4III	ACNGT	3 cut(s)	79, 265, 641
HpyCH4V	TGCA	5 cut(s)	467, 478, 506, 596, 727
HpyF10VI	GCNNNNNNNGC	1 cut(s)	624
HpyF3I	CTNAG	1 cut(s)	162
Hsp92II	CATG	6 cut(s)	157, 494, 524, 607, 791, 811
Ksp22I	TGATCA	3 cut(s)	148, 393, 796
KspAI	GTTAAC	2 cut(s)	637, 853
Kzo9I	GATC	4 cut(s)	148, 393, 655, 796
LguI	GCTCTTC	1 cut(s)	318
LmnI	GCTCC	3 cut(s)	240, 703, 764
Lsp1109I	GCAGC	3 cut(s)	350, 707, 835
LweI	GCATC	1 cut(s)	868
MabI	ACCWGGT	1 cut(s)	70
MaeI	CTAG	3 cut(s)	416, 462, 684
MaeIII	GTNAC	2 cut(s)	508, 575
MalI	GATC	4 cut(s)	150, 395, 657, 798
MboI	GATC	4 cut(s)	148, 393, 655, 796
MboII	GAAGA	4 cut(s)	136, 335, 650, 875
MhlI	GDGCHC	2 cut(s)	237, 529
MluCI	AATT	8 cut(s)	54, 85, 212, 271, 384, 563, 649, 816
MnlI	CCTC	8 cut(s)	48, 157, 487, 539, 565, 608, 709, 841
MseI	TTAA	8 cut(s)	81, 174, 188, 315, 558, 636, 774, 852
MslI	CAYNNNNRTG	2 cut(s)	495, 732
MspA1I	CMGCKG	1 cut(s)	341
MspI	CCGG	2 cut(s)	34, 845
MspR9I	CCNGG	2 cut(s)	72, 230
Mva1269I	GAATGC	1 cut(s)	834
MvaI	CCWGG	2 cut(s)	72, 230
MwoI	GCNNNNNNNGC	1 cut(s)	624
NdeII	GATC	4 cut(s)	148, 393, 655, 796
NlaIII	CATG	6 cut(s)	157, 494, 524, 607, 791, 811
NlaIV	GGNNCC	1 cut(s)	526
NspI	RCATGY	2 cut(s)	157, 607
PaeR7I	CTCGAG	1 cut(s)	612
PagI	TCATGA	1 cut(s)	490
PciSI	GCTCTTC	1 cut(s)	318
PcsI	WCGNNNNNNNCGW	1 cut(s)	745
PctI	GAATGC	1 cut(s)	834
PfeI	GAWTC	4 cut(s)	127, 182, 438, 791
PkrI	GCNGC	4 cut(s)	340, 697, 758, 825
Psp6I	CCWGG	2 cut(s)	70, 228
PspFI	CCCAGC	1 cut(s)	106
PspGI	CCWGG	2 cut(s)	70, 228
PspN4I	GGNNCC	1 cut(s)	526
PspXI	VCTCGAGB	1 cut(s)	612
PsrI	GAACNNNNNNTAC	2 cut(s)	58, 90
PstNI	CAGNNNCTG	1 cut(s)	707
PvuII	CAGCTG	1 cut(s)	341
RsaI	GTAC	5 cut(s)	32, 76, 353, 722, 843
RsaNI	GTAC	5 cut(s)	31, 75, 352, 721, 842
RseI	CAYNNNNRTG	2 cut(s)	495, 732
SapI	GCTCTTC	1 cut(s)	318
SaqAI	TTAA	8 cut(s)	81, 174, 188, 315, 558, 636, 774, 852
SatI	GCNGC	4 cut(s)	339, 696, 757, 824
Sau3AI	GATC	4 cut(s)	148, 393, 655, 796
ScrFI	CCNGG	2 cut(s)	72, 230
SduI	GDGCHC	2 cut(s)	237, 529
SexAI	ACCWGGT	1 cut(s)	70
SfaNI	GCATC	1 cut(s)	868
Sfr274I	CTCGAG	1 cut(s)	612
SlaI	CTCGAG	1 cut(s)	612
SmiMI	CAYNNNNRTG	2 cut(s)	495, 732
SmlI	CTYRAG	3 cut(s)	280, 612, 884
SmoI	CTYRAG	3 cut(s)	280, 612, 884
Sse9I	AATT	8 cut(s)	54, 85, 212, 271, 384, 563, 649, 816
SsiI	CCGC	3 cut(s)	117, 757, 893
SspMI	CTAG	3 cut(s)	416, 462, 684
StyD4I	CCNGG	2 cut(s)	70, 228
StyI	CCWWGG	2 cut(s)	333, 415
TaaI	ACNGT	3 cut(s)	79, 265, 641
TaqI	TCGA	3 cut(s)	138, 255, 613
TasI	AATT	8 cut(s)	54, 85, 212, 271, 384, 563, 649, 816
TatI	WGTACW	2 cut(s)	351, 720
TauI	GCSGC	1 cut(s)	759
TfiI	GAWTC	4 cut(s)	127, 182, 438, 791
Tru1I	TTAA	8 cut(s)	81, 174, 188, 315, 558, 636, 774, 852
Tru9I	TTAA	8 cut(s)	81, 174, 188, 315, 558, 636, 774, 852
TscAI	CASTG	2 cut(s)	30, 230
TseI	GCWGC	3 cut(s)	338, 695, 823
TspDTI	ATGAA	7 cut(s)	156, 265, 273, 318, 387, 479, 509
TspRI	CASTG	2 cut(s)	30, 230
XapI	RAATTY	4 cut(s)	85, 212, 271, 563
XceI	RCATGY	2 cut(s)	157, 607
XhoI	CTCGAG	1 cut(s)	612
XmaJI	CCTAGG	1 cut(s)	415
XmiI	GTMKAC	1 cut(s)	360
XspI	CTAG	3 cut(s)	416, 462, 684

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