Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0016807

Physical Location & Seq

Genomic Coordinates Reverse (-)

73871867 .. 73874123

Gene Structure 2257 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG429500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 918 bp

ATGTCTTCCATAGGTATTGACAAGGAGAAGAAGATGAAAAAGGCGAAAGAGGAACGCGTAGAAATTCCGATTCCGATGAGAATTGAGAAGAAGAGCAAGAAAGAGTCAAAGAAGCGAAAGGATTTGGATATGGACGTGAATGCTGGCGACAAGGAAAACAGGAGCGAGCCCTTGAACAATGCCAAACCCAACAGCGAGTTTGAGGTACAAAAGACTAAGAAGAAATCAAAGAAGGACAAGGTGGAGCAAGAGGAGAAGAAAACGAACGGGGAGGAGGAGACCCCGAATGCGGTGTCGATGACCAAAAAGAAATCAAAGAAGGCCAAGGTGGAGGAAGAGGAGAAGAAAAAGAATGTGGAGGAGGAGAAACCTAATGCGGTGTCGCAGTTTCGGATTTCGCAGCCATTGAGGGCTAAGTTGAAGGAGAGGGGGGTCGAGTCCTTGTCTCCAATTCAGGCCATGACCTTCGATACCATCTTGGATGGGTTCGACTTGATGGGTCAGGCTAGCGCTGGCCAGGATAAAAATCTGGCTTTTGTGTTACCCATCCTGGAGTCTCTAATAAACGGTTCTGCAGAACAATCTAAAAAGACCGGGTACAGGGCTCCAACTGTTATCGTACTTTTACCTACAAGGGACTTGGCCATACAGGTTCTTAAGGAATTTGGATTTTACGGCGGTTCTTTGGGAATAGTGTCATGTTGTGTACACGGAGGATCCTCCCACAAGGTTCAAACAAAGAAGTTAAAGAGAGGCCGGGTTGATATCATTGTTGGAACACCTGGCCGTGTAAAGGATCAAATAGAAAAGGGCAACATAGACTTGAGCAATTTGAAGTTTCGGGTCCTTGGTGAAGCTGATGAAATGTCAAAGAAGGGGTTAGTTGAACATGTTGAATTCATTCTAGGTATACCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009987 GO:0010501 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0017151 GO:0019899 GO:0031974 GO:0031981 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:0071704 GO:0090304 GO:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko01110 map01110

Pfam Domains

Protein Families

DEAD GUCT Helicase_C

Protein Analysis

305

Amino Acids

34.05

Weight (kDa)

9.46

Isoelectric Point (pI)

39.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	149 - 302	2.2e-27	DEAD/DEAH box helicase

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: OG0016807)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g36510 FvH4_3g36510
pyrus_communis	pycom01g19970
rosa_chinensis	RchiOBHm_Chr5g0065371 RchiOBHm_Chr5g0065431
rosa_laevigata	RLG00000035787
rosa_multiflora	Rmu_co8502081.1_g000001
rosa_roxburghii	Rroxscaffold_1G00015820
rosa_rugosa	Rorug05G0371800
rosa_samantha	Rh5AG429500 Rh5BG444800 Rh5CG467100 Rh5DG457300
rosa_wichuraiana	Rw5G040320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	910
AccII	CGCG	1 cut(s)	57
AciI	CCGC	3 cut(s)	290, 377, 678
AclWI	GGATC	3 cut(s)	711, 724, 804
AcoI	YGGCCR	3 cut(s)	514, 642, 784
AcsI	RAATTY	3 cut(s)	63, 662, 896
AfaI	GTAC	4 cut(s)	207, 599, 621, 708
AfeI	AGCGCT	1 cut(s)	511
AfiI	CCNNNNNNNGG	3 cut(s)	289, 600, 793
AflII	CTTAAG	1 cut(s)	656
AflIII	ACRYGT	2 cut(s)	55, 889
AgsI	TTSAA	6 cut(s)	175, 421, 734, 835, 887, 896
AjiI	CACGTC	1 cut(s)	136
AjnI	CCWGG	3 cut(s)	516, 549, 781
AluBI	AGCT	1 cut(s)	857
AluI	AGCT	1 cut(s)	857
Alw26I	GTCTC	3 cut(s)	272, 450, 561
AlwI	GGATC	3 cut(s)	711, 724, 804
Aor51HI	AGCGCT	1 cut(s)	511
AoxI	GGCC	6 cut(s)	321, 456, 514, 642, 754, 784
ApeKI	GCWGC	1 cut(s)	400
ApoI	RAATTY	3 cut(s)	63, 662, 896
ArsI	GACNNNNNNTTYG	2 cut(s)	278, 310
Asp700I	GAANNNNTTC	1 cut(s)	900
AspLEI	GCGC	1 cut(s)	512
AspS9I	GGNCC	1 cut(s)	844
AsuC2I	CCSGG	2 cut(s)	595, 758
AsuHPI	GGTGA	1 cut(s)	863
AsuNHI	GCTAGC	1 cut(s)	506
AvaII	GGWCC	1 cut(s)	844
BalI	TGGCCA	2 cut(s)	516, 644
BamHI	GGATCC	1 cut(s)	716
BanII	GRGCYC	2 cut(s)	171, 607
BbvI	GCAGC	1 cut(s)	412
BccI	CCATC	4 cut(s)	476, 482, 490, 554
BceAI	ACGGC	2 cut(s)	691, 771
BciT130I	CCWGG	3 cut(s)	518, 551, 783
BcnI	CCSGG	2 cut(s)	595, 758
BcoDI	GTCTC	3 cut(s)	272, 450, 561
BfaI	CTAG	2 cut(s)	507, 905
BfmI	CTRYAG	1 cut(s)	573
BfoI	RGCGCY	1 cut(s)	513
BfrI	CTTAAG	1 cut(s)	656
BisI	GCNGC	1 cut(s)	401
BlsI	GCNGC	1 cut(s)	402
Bme1390I	CCNGG	5 cut(s)	518, 551, 595, 758, 783
Bme18I	GGWCC	1 cut(s)	844
BmgBI	CACGTC	1 cut(s)	136
BmgT120I	GGNCC	1 cut(s)	844
BmiI	GGNNCC	3 cut(s)	606, 718, 845
BmrFI	CCNGG	5 cut(s)	518, 551, 595, 758, 783
BmtI	GCTAGC	1 cut(s)	510
BpmI	CTGGAG	1 cut(s)	572
BpuEI	CTTGAG	1 cut(s)	844
BpuMI	CCSGG	2 cut(s)	595, 758
BsaBI	GATNNNNATC	1 cut(s)	525
BsaI	GGTCTC	1 cut(s)	272
BsaJI	CCNNGG	2 cut(s)	324, 847
Bsc4I	CCNNNNNNNGG	3 cut(s)	289, 600, 793
Bse8I	GATNNNNATC	1 cut(s)	525
BseBI	CCWGG	3 cut(s)	518, 551, 783
BseDI	CCNNGG	2 cut(s)	324, 847
BseGI	GGATG	2 cut(s)	487, 546
BseJI	GATNNNNATC	1 cut(s)	525
BseLI	CCNNNNNNNGG	3 cut(s)	289, 600, 793
BseRI	GAGGAG	6 cut(s)	266, 287, 290, 353, 374, 377
BseXI	GCAGC	1 cut(s)	412
Bsh1236I	CGCG	1 cut(s)	57
BshFI	GGCC	6 cut(s)	323, 458, 516, 644, 756, 786
BsiSI	CCGG	2 cut(s)	594, 757
BslFI	GGGAC	1 cut(s)	650
BslI	CCNNNNNNNGG	3 cut(s)	289, 600, 793
BsmAI	GTCTC	3 cut(s)	272, 450, 561
BsmFI	GGGAC	1 cut(s)	650
BsmI	GAATGC	2 cut(s)	145, 292
BsnI	GGCC	6 cut(s)	323, 458, 516, 644, 756, 786
Bso31I	GGTCTC	1 cut(s)	272
Bsp1286I	GDGCHC	2 cut(s)	171, 607
Bsp1407I	TGTACA	1 cut(s)	706
Bsp143I	GATC	2 cut(s)	716, 796
BspACI	CCGC	3 cut(s)	290, 377, 678
BspANI	GGCC	6 cut(s)	323, 458, 516, 644, 756, 786
BspFNI	CGCG	1 cut(s)	57
BspLI	GGNNCC	3 cut(s)	606, 718, 845
BspMAI	CTGCAG	1 cut(s)	577
BspOI	GCTAGC	1 cut(s)	510
BspPI	GGATC	3 cut(s)	711, 724, 804
BspQI	GCTCTTC	1 cut(s)	86
BspTI	CTTAAG	1 cut(s)	656
BspTNI	GGTCTC	1 cut(s)	272
BsrGI	TGTACA	1 cut(s)	706
BssECI	CCNNGG	2 cut(s)	324, 847
BssMI	GATC	2 cut(s)	716, 796
BssNAI	GTATAC	1 cut(s)	911
BssT1I	CCWWGG	2 cut(s)	324, 847
Bst1107I	GTATAC	1 cut(s)	911
Bst2UI	CCWGG	3 cut(s)	518, 551, 783
Bst4CI	ACNGT	2 cut(s)	569, 613
Bst6I	CTCTTC	2 cut(s)	86, 330
BstAFI	CTTAAG	1 cut(s)	656
BstAUI	TGTACA	1 cut(s)	706
BstC8I	GCNNGC	4 cut(s)	145, 167, 508, 514
BstDEI	CTNAG	2 cut(s)	216, 414
BstF5I	GGATG	2 cut(s)	487, 546
BstFNI	CGCG	1 cut(s)	57
BstH2I	RGCGCY	1 cut(s)	513
BstHHI	GCGC	1 cut(s)	512
BstKTI	GATC	2 cut(s)	719, 799
BstMAI	GTCTC	3 cut(s)	272, 450, 561
BstMBI	GATC	2 cut(s)	716, 796
BstNI	CCWGG	3 cut(s)	518, 551, 783
BstNSI	RCATGY	1 cut(s)	893
BstSCI	CCNGG	5 cut(s)	516, 549, 593, 756, 781
BstSFI	CTRYAG	1 cut(s)	573
BstUI	CGCG	1 cut(s)	57
BstV1I	GCAGC	1 cut(s)	412
BstX2I	RGATCY	1 cut(s)	716
BstYI	RGATCY	1 cut(s)	716
BstZ17I	GTATAC	1 cut(s)	911
BsuRI	GGCC	6 cut(s)	323, 458, 516, 644, 756, 786
BtrI	CACGTC	1 cut(s)	136
BtsCI	GGATG	2 cut(s)	487, 546
Cac8I	GCNNGC	4 cut(s)	145, 167, 508, 514
CfoI	GCGC	1 cut(s)	512
Cfr13I	GGNCC	1 cut(s)	844
Csp6I	GTAC	4 cut(s)	206, 598, 620, 707
CviAII	CATG	3 cut(s)	460, 699, 890
CviQI	GTAC	4 cut(s)	206, 598, 620, 707
DdeI	CTNAG	2 cut(s)	216, 414
DpnI	GATC	2 cut(s)	718, 798
DpnII	GATC	2 cut(s)	716, 796
EaeI	YGGCCR	3 cut(s)	514, 642, 784
Eam1104I	CTCTTC	2 cut(s)	86, 330
EarI	CTCTTC	2 cut(s)	86, 330
Eco130I	CCWWGG	2 cut(s)	324, 847
Eco24I	GRGCYC	2 cut(s)	171, 607
Eco31I	GGTCTC	1 cut(s)	272
Eco32I	GATATC	1 cut(s)	766
Eco47I	GGWCC	1 cut(s)	844
Eco47III	AGCGCT	1 cut(s)	511
EcoO109I	RGGNCCY	1 cut(s)	844
EcoRI	GAATTC	1 cut(s)	896
EcoRII	CCWGG	3 cut(s)	516, 549, 781
EcoRV	GATATC	1 cut(s)	766
EcoT14I	CCWWGG	2 cut(s)	324, 847
EcoT38I	GRGCYC	2 cut(s)	171, 607
ErhI	CCWWGG	2 cut(s)	324, 847
FaeI	CATG	3 cut(s)	463, 702, 893
FaiI	YATR	8 cut(s)	11, 131, 461, 647, 700, 818, 891, 911
FaqI	GGGAC	1 cut(s)	650
FatI	CATG	3 cut(s)	459, 698, 889
FblI	GTMKAC	1 cut(s)	910
Fnu4HI	GCNGC	1 cut(s)	401
FokI	GGATG	2 cut(s)	494, 533
FriOI	GRGCYC	2 cut(s)	171, 607
Fsp4HI	GCNGC	1 cut(s)	401
FspBI	CTAG	2 cut(s)	507, 905
GlaI	GCGC	1 cut(s)	511
GluI	GCNGC	1 cut(s)	401
GsuI	CTGGAG	1 cut(s)	572
HaeII	RGCGCY	1 cut(s)	513
HaeIII	GGCC	6 cut(s)	323, 458, 516, 644, 756, 786
HapII	CCGG	2 cut(s)	594, 757
HhaI	GCGC	1 cut(s)	512
Hin1II	CATG	3 cut(s)	463, 702, 893
Hin6I	GCGC	1 cut(s)	510
HinP1I	GCGC	1 cut(s)	510
HinfI	GANTC	4 cut(s)	70, 104, 437, 554
HpaII	CCGG	2 cut(s)	594, 757
HphI	GGTGA	1 cut(s)	863
Hpy166II	GTNNAC	3 cut(s)	707, 709, 911
Hpy188I	TCNGA	3 cut(s)	69, 75, 393
Hpy8I	GTNNAC	3 cut(s)	707, 709, 911
HpyAV	CCTTC	5 cut(s)	226, 313, 415, 475, 868
HpyCH4III	ACNGT	2 cut(s)	569, 613
HpyCH4IV	ACGT	1 cut(s)	135
HpyCH4V	TGCA	1 cut(s)	575
HpyF3I	CTNAG	2 cut(s)	216, 414
HpySE526I	ACGT	1 cut(s)	135
Hsp92II	CATG	3 cut(s)	463, 702, 893
HspAI	GCGC	1 cut(s)	510
Kzo9I	GATC	2 cut(s)	716, 796
LguI	GCTCTTC	1 cut(s)	86
LmnI	GCTCC	3 cut(s)	162, 244, 610
Lsp1109I	GCAGC	1 cut(s)	412
MaeI	CTAG	2 cut(s)	507, 905
MaeII	ACGT	1 cut(s)	135
MaeIII	GTNAC	1 cut(s)	540
MalI	GATC	2 cut(s)	718, 798
MboI	GATC	2 cut(s)	716, 796
MboII	GAAGA	8 cut(s)	40, 43, 100, 103, 232, 268, 347, 355
MflI	RGATCY	1 cut(s)	716
MhlI	GDGCHC	2 cut(s)	171, 607
MlsI	TGGCCA	2 cut(s)	516, 644
MluCI	AATT	6 cut(s)	63, 81, 450, 662, 829, 896
MluI	ACGCGT	1 cut(s)	55
MluNI	TGGCCA	2 cut(s)	516, 644
MlyI	GAGTC	3 cut(s)	113, 446, 563
MmeI	TCCRAC	2 cut(s)	632, 754
Mox20I	TGGCCA	2 cut(s)	516, 644
MroXI	GAANNNNTTC	1 cut(s)	900
MscI	TGGCCA	2 cut(s)	516, 644
MseI	TTAA	3 cut(s)	657, 746, 916
Msp20I	TGGCCA	2 cut(s)	516, 644
MspCI	CTTAAG	1 cut(s)	656
MspI	CCGG	2 cut(s)	594, 757
MspR9I	CCNGG	5 cut(s)	518, 551, 595, 758, 783
Mva1269I	GAATGC	2 cut(s)	145, 292
MvaI	CCWGG	3 cut(s)	518, 551, 783
MvnI	CGCG	1 cut(s)	57
NciI	CCSGG	2 cut(s)	595, 758
NdeII	GATC	2 cut(s)	716, 796
NheI	GCTAGC	1 cut(s)	506
NlaIII	CATG	3 cut(s)	463, 702, 893
NlaIV	GGNNCC	3 cut(s)	606, 718, 845
NspI	RCATGY	1 cut(s)	893
PciI	ACATGT	1 cut(s)	889
PciSI	GCTCTTC	1 cut(s)	86
PctI	GAATGC	2 cut(s)	145, 292
PdmI	GAANNNNTTC	1 cut(s)	900
PfeI	GAWTC	1 cut(s)	70
PfoI	TCCNGGA	1 cut(s)	549
PkrI	GCNGC	1 cut(s)	402
PleI	GAGTC	3 cut(s)	112, 445, 562
PpsI	GAGTC	3 cut(s)	112, 445, 562
PpuMI	RGGWCCY	1 cut(s)	844
PscI	ACATGT	1 cut(s)	889
Psp5II	RGGWCCY	1 cut(s)	844
Psp6I	CCWGG	3 cut(s)	516, 549, 781
PspGI	CCWGG	3 cut(s)	516, 549, 781
PspN4I	GGNNCC	3 cut(s)	606, 718, 845
PspPI	GGNCC	1 cut(s)	844
PspPPI	RGGWCCY	1 cut(s)	844
PstI	CTGCAG	1 cut(s)	577
PsuI	RGATCY	1 cut(s)	716
RsaI	GTAC	4 cut(s)	207, 599, 621, 708
RsaNI	GTAC	4 cut(s)	206, 598, 620, 707
SapI	GCTCTTC	1 cut(s)	86
SaqAI	TTAA	3 cut(s)	657, 746, 916
SatI	GCNGC	1 cut(s)	401
Sau3AI	GATC	2 cut(s)	716, 796
Sau96I	GGNCC	1 cut(s)	844
SchI	GAGTC	3 cut(s)	113, 446, 563
ScrFI	CCNGG	5 cut(s)	518, 551, 595, 758, 783
SduI	GDGCHC	2 cut(s)	171, 607
SfcI	CTRYAG	1 cut(s)	573
SinI	GGWCC	1 cut(s)	844
SmlI	CTYRAG	2 cut(s)	656, 823
SmoI	CTYRAG	2 cut(s)	656, 823
Sse9I	AATT	6 cut(s)	63, 81, 450, 662, 829, 896
SsiI	CCGC	3 cut(s)	290, 377, 678
SspMI	CTAG	2 cut(s)	507, 905
StyD4I	CCNGG	5 cut(s)	516, 549, 593, 756, 781
StyI	CCWWGG	2 cut(s)	324, 847
TaaI	ACNGT	2 cut(s)	569, 613
TaiI	ACGT	1 cut(s)	138
TaqI	TCGA	4 cut(s)	296, 435, 468, 489
TasI	AATT	6 cut(s)	63, 81, 450, 662, 829, 896
TatI	WGTACW	1 cut(s)	706
TfiI	GAWTC	1 cut(s)	70
Tru1I	TTAA	3 cut(s)	657, 746, 916
Tru9I	TTAA	3 cut(s)	657, 746, 916
TseI	GCWGC	1 cut(s)	400
TspDTI	ATGAA	3 cut(s)	50, 876, 889
TspGWI	ACGGA	1 cut(s)	726
Vha464I	CTTAAG	1 cut(s)	656
VpaK11BI	GGWCC	1 cut(s)	844
XapI	RAATTY	3 cut(s)	63, 662, 896
XceI	RCATGY	1 cut(s)	893
XmiI	GTMKAC	1 cut(s)	910
XmnI	GAANNNNTTC	1 cut(s)	900
XspI	CTAG	2 cut(s)	507, 905

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