Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0006588

Physical Location & Seq

Genomic Coordinates Forward (+)

49282937 .. 49289642

Gene Structure 6706 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG235400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1089 bp

ATGGGAATATATGAGAAGGGATTTGAAAGGCCATCTCCTATTCAGGAAGAAAGTATACCAATTGCTTTAACTGGTAGTGATATTCTTGCTAGAGCTAAAAATGGAACGGGGAAAACGGCTGCATTTTGCATCCCTGCTTTGGAAAAAATTGATCAAGATAACAATGTAATTCAAGTTGTTATACTGGTTCCAACTCGTGAGTTGGCCCTTCAAACATCACAAGTCTGTAAGGAGCTAGGGAAGCATTTGCAAATACAAGTTATGGTTACTACTGGAGGTACCAGCTTAAAGGATGATATCATGCGTTTATACCAACCGGTTCACTTACTCGTTGGAACTCCTGGAAGAATTTTAGATCTTTCAAAGAAAGGTGTTTGCATCTTGAAAGACTGTTCTATGCTTGTTATGGATGAGGCTGATAAACTTTTGTCTCCGGAGTTTCAACCTTCAGTGGAGCAGCTTATCCGCTTCTTGCCTTCAAATCGGCAAATTTTGATGTTTTCAGCTACATTTCCTGTCACTGTTAAGGACTTCAAAGAAAGATATCTGCACAAGCCTTATGTTATCAACCTTATGGATGAGCTTACTCTAAAGGGTATCACACAGTTCTATGCTTTTGTCGAGGAGAGACAGAAAGTCCACTGCCTAAACACACTTTTCTCCAAGCTTCAAATAAACCAGTCAATCATATTCTGCAATTCTGTGAATCGGGTGGAGTTATTGGCCAAGAAAATTACAGAACTGGGCTATTCATGCTTTTATATTCATGCAAAGATGCTACAAGACCATCGTAACAGAGTATTCCATGACTTCCGTAATGGTGCATGCAGAAATCTTGTTTGCACTGATCTATTTACAAGAGGAATAGATATTCAAGCTGTCAATGTTGTCATTAACTTTGATTTTCCAAAGAACTCAGAGACATATCTGCACAGGGTGGGTCGATCTGGAAGGTTTGGACACCTTGGTTTGGCTGTAAATTTGATCACCTATGAGGACCGCTTCAACTTGTATAGAATTGAGCAAGAACTTGGCACTGAGATCAAGCAAATTCCCCCACATATTGATCAGGCAATTTATTGCCGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

362

Amino Acids

41.3

Weight (kDa)

8.44

Isoelectric Point (pI)

38.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	12 - 177	7.9e-48	DEAD/DEAH box helicase
Helicase_C	PF00271	212 - 320	3.4e-32	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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0006588)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G45810 AT3G61240 AT3G61240 AT4G00660 AT4G00660
fragaria_vesca	FvH4_7g13810 FvH4_7g13810 FvH4_7g13810 FvH4_7g13810 FvH4_7g13810 FvH4_7g13810
malus_domestica	MD01G1054200.v1.1 MD07G1141100.v1.1
prunus_persica	Prupe.2G163800_v2.0.a1
pyrus_communis	pycom01g07950 pycom07g13890
rosa_chinensis	RchiOBHm_Chr1g0353991
rosa_laevigata	RLG00000028238
rosa_multiflora	Rmu_sc0001763.1_g000011
rosa_roxburghii	Rroxscaffold_4G00301390
rosa_rugosa	Rorug01G0239700
rosa_samantha	Rh1AG251200 Rh1BG222800 Rh1CG235400 Rh1DG249700
rosa_wichuraiana	Rw1G021910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	278
AccB1I	GGYRCC	1 cut(s)	278
AccI	GTMKAC	1 cut(s)	55
AccIII	TCCGGA	1 cut(s)	433
AciI	CCGC	2 cut(s)	466, 1000
AcoI	YGGCCR	1 cut(s)	723
AcsI	RAATTY	4 cut(s)	348, 489, 979, 1050
AcuI	CTGAAG	1 cut(s)	432
AdeI	CACNNNGTG	1 cut(s)	937
AfaI	GTAC	1 cut(s)	280
AfiI	CCNNNNNNNGG	2 cut(s)	139, 970
AgeI	ACCGGT	1 cut(s)	316
AhdI	GACNNNNNGTC	1 cut(s)	635
AjnI	CCWGG	1 cut(s)	340
AluBI	AGCT	8 cut(s)	95, 235, 285, 460, 506, 583, 667, 878
AluI	AGCT	8 cut(s)	95, 235, 285, 460, 506, 583, 667, 878
Alw26I	GTCTC	3 cut(s)	435, 622, 914
Aor13HI	TCCGGA	1 cut(s)	433
AoxI	GGCC	3 cut(s)	29, 204, 723
ApeKI	GCWGC	2 cut(s)	119, 457
ApoI	RAATTY	4 cut(s)	348, 489, 979, 1050
AsiGI	ACCGGT	1 cut(s)	316
Asp718I	GGTACC	1 cut(s)	278
AspS9I	GGNCC	2 cut(s)	205, 997
AsuHPI	GGTGA	1 cut(s)	979
AvaII	GGWCC	1 cut(s)	997
BalI	TGGCCA	1 cut(s)	725
BanI	GGYRCC	1 cut(s)	278
BarI	GAAGNNNNNNTAC	2 cut(s)	39, 71
BauI	CACGAG	1 cut(s)	195
BbvI	GCAGC	2 cut(s)	106, 469
BccI	CCATC	2 cut(s)	40, 795
BceAI	ACGGC	1 cut(s)	132
BciT130I	CCWGG	1 cut(s)	342
BclI	TGATCA	3 cut(s)	151, 984, 1066
BcoDI	GTCTC	3 cut(s)	435, 622, 914
BfaI	CTAG	2 cut(s)	90, 236
BglII	AGATCT	1 cut(s)	355
BisI	GCNGC	2 cut(s)	120, 458
BlsI	GCNGC	2 cut(s)	121, 459
Bme1390I	CCNGG	1 cut(s)	342
Bme18I	GGWCC	1 cut(s)	997
BmeRI	GACNNNNNGTC	1 cut(s)	635
BmgT120I	GGNCC	2 cut(s)	205, 997
BmiI	GGNNCC	2 cut(s)	189, 280
BmrFI	CCNGG	1 cut(s)	342
BmrI	ACTGGG	1 cut(s)	752
BmsI	GCATC	3 cut(s)	138, 387, 765
BmuI	ACTGGG	1 cut(s)	752
BpmI	CTGGAG	1 cut(s)	294
BsaJI	CCNNGG	1 cut(s)	964
BsaWI	WCCGGW	2 cut(s)	316, 433
Bsc4I	CCNNNNNNNGG	2 cut(s)	139, 970
Bse118I	RCCGGY	2 cut(s)	316, 1083
Bse1I	ACTGG	5 cut(s)	76, 189, 277, 679, 747
BseAI	TCCGGA	1 cut(s)	433
BseBI	CCWGG	1 cut(s)	342
BseDI	CCNNGG	1 cut(s)	964
BseGI	GGATG	4 cut(s)	129, 298, 415, 583
BseLI	CCNNNNNNNGG	2 cut(s)	139, 970
BseMII	CTCAG	2 cut(s)	930, 1029
BseNI	ACTGG	5 cut(s)	76, 189, 277, 679, 747
BseRI	GAGGAG	1 cut(s)	638
BseXI	GCAGC	2 cut(s)	106, 469
BsgI	GTGCAG	2 cut(s)	533, 914
BshFI	GGCC	3 cut(s)	31, 206, 725
BshNI	GGYRCC	1 cut(s)	278
BshTI	ACCGGT	1 cut(s)	316
BsiSI	CCGG	3 cut(s)	317, 434, 1084
BslI	CCNNNNNNNGG	2 cut(s)	139, 970
BsmAI	GTCTC	3 cut(s)	435, 622, 914
BsnI	GGCC	3 cut(s)	31, 206, 725
Bsp13I	TCCGGA	1 cut(s)	433
Bsp143I	GATC	7 cut(s)	151, 355, 847, 944, 984, 1041, 1066
BspACI	CCGC	2 cut(s)	466, 1000
BspANI	GGCC	3 cut(s)	31, 206, 725
BspCNI	CTCAG	2 cut(s)	929, 1030
BspEI	TCCGGA	1 cut(s)	433
BspLI	GGNNCC	2 cut(s)	189, 280
BspT107I	GGYRCC	1 cut(s)	278
BsrFI	RCCGGY	2 cut(s)	316, 1083
BsrI	ACTGG	5 cut(s)	76, 189, 277, 679, 747
BssAI	RCCGGY	2 cut(s)	316, 1083
BssECI	CCNNGG	1 cut(s)	964
BssMI	GATC	7 cut(s)	151, 355, 847, 944, 984, 1041, 1066
BssNAI	GTATAC	1 cut(s)	56
BssSI	CACGAG	1 cut(s)	195
BssT1I	CCWWGG	1 cut(s)	964
Bst1107I	GTATAC	1 cut(s)	56
Bst2BI	CACGAG	1 cut(s)	195
Bst2UI	CCWGG	1 cut(s)	342
Bst4CI	ACNGT	3 cut(s)	392, 523, 606
BstC8I	GCNNGC	1 cut(s)	826
BstDEI	CTNAG	2 cut(s)	916, 1038
BstF5I	GGATG	4 cut(s)	129, 298, 415, 583
BstKTI	GATC	7 cut(s)	154, 358, 850, 947, 987, 1044, 1069
BstMAI	GTCTC	3 cut(s)	435, 622, 914
BstMBI	GATC	7 cut(s)	151, 355, 847, 944, 984, 1041, 1066
BstMWI	GCNNNNNNNGC	2 cut(s)	241, 753
BstNI	CCWGG	1 cut(s)	342
BstNSI	RCATGY	1 cut(s)	828
BstSCI	CCNGG	1 cut(s)	340
BstV1I	GCAGC	2 cut(s)	106, 469
BstX2I	RGATCY	1 cut(s)	355
BstYI	RGATCY	1 cut(s)	355
BstZ17I	GTATAC	1 cut(s)	56
BsuRI	GGCC	3 cut(s)	31, 206, 725
BtsCI	GGATG	4 cut(s)	129, 298, 415, 583
BtsI	GCAGTG	1 cut(s)	640
BtsIMutI	CAGTG	5 cut(s)	456, 519, 640, 843, 1035
Cac8I	GCNNGC	1 cut(s)	826
Cfr10I	RCCGGY	2 cut(s)	316, 1083
Cfr13I	GGNCC	2 cut(s)	205, 997
Csp6I	GTAC	1 cut(s)	279
CspAI	ACCGGT	1 cut(s)	316
CviAII	CATG	5 cut(s)	301, 753, 767, 806, 825
CviQI	GTAC	1 cut(s)	279
DdeI	CTNAG	2 cut(s)	916, 1038
DpnI	GATC	7 cut(s)	153, 357, 849, 946, 986, 1043, 1068
DpnII	GATC	7 cut(s)	151, 355, 847, 944, 984, 1041, 1066
DraIII	CACNNNGTG	1 cut(s)	937
DriI	GACNNNNNGTC	1 cut(s)	635
EaeI	YGGCCR	1 cut(s)	723
Eam1105I	GACNNNNNGTC	1 cut(s)	635
Eco130I	CCWWGG	1 cut(s)	964
Eco32I	GATATC	2 cut(s)	298, 545
Eco47I	GGWCC	1 cut(s)	997
Eco57I	CTGAAG	1 cut(s)	432
EcoRII	CCWGG	1 cut(s)	340
EcoRV	GATATC	2 cut(s)	298, 545
EcoT14I	CCWWGG	1 cut(s)	964
ErhI	CCWWGG	1 cut(s)	964
FaeI	CATG	5 cut(s)	304, 756, 770, 809, 828
FatI	CATG	5 cut(s)	300, 752, 766, 805, 824
FbaI	TGATCA	3 cut(s)	151, 984, 1066
FblI	GTMKAC	1 cut(s)	55
Fnu4HI	GCNGC	2 cut(s)	120, 458
FokI	GGATG	4 cut(s)	116, 305, 422, 590
Fsp4HI	GCNGC	2 cut(s)	120, 458
FspBI	CTAG	2 cut(s)	90, 236
GluI	GCNGC	2 cut(s)	120, 458
GsuI	CTGGAG	1 cut(s)	294
HaeIII	GGCC	3 cut(s)	31, 206, 725
HapII	CCGG	3 cut(s)	317, 434, 1084
Hin1II	CATG	5 cut(s)	304, 756, 770, 809, 828
HindIII	AAGCTT	1 cut(s)	665
HinfI	GANTC	1 cut(s)	706
HpaII	CCGG	3 cut(s)	317, 434, 1084
HphI	GGTGA	1 cut(s)	979
Hpy166II	GTNNAC	3 cut(s)	56, 322, 640
Hpy188I	TCNGA	1 cut(s)	919
Hpy188III	TCNNGA	6 cut(s)	44, 155, 197, 382, 434, 948
Hpy8I	GTNNAC	3 cut(s)	56, 322, 640
HpyAV	CCTTC	5 cut(s)	10, 218, 456, 486, 945
HpyCH4III	ACNGT	3 cut(s)	392, 523, 606
HpyF10VI	GCNNNNNNNGC	2 cut(s)	241, 753
HpyF3I	CTNAG	2 cut(s)	916, 1038
Hsp92II	CATG	5 cut(s)	304, 756, 770, 809, 828
Kpn2I	TCCGGA	1 cut(s)	433
KpnI	GGTACC	1 cut(s)	282
Ksp22I	TGATCA	3 cut(s)	151, 984, 1066
Kzo9I	GATC	7 cut(s)	151, 355, 847, 944, 984, 1041, 1066
LmnI	GCTCC	2 cut(s)	232, 454
Lsp1109I	GCAGC	2 cut(s)	106, 469
LweI	GCATC	3 cut(s)	138, 387, 765
MaeI	CTAG	2 cut(s)	90, 236
MaeIII	GTNAC	3 cut(s)	265, 517, 791
MalI	GATC	7 cut(s)	153, 357, 849, 946, 986, 1043, 1068
MboI	GATC	7 cut(s)	151, 355, 847, 944, 984, 1041, 1066
MboII	GAAGA	2 cut(s)	59, 357
MfeI	CAATTG	1 cut(s)	60
MflI	RGATCY	1 cut(s)	355
MlsI	TGGCCA	1 cut(s)	725
MluNI	TGGCCA	1 cut(s)	725
MmeI	TCCRAC	2 cut(s)	215, 313
MnlI	CCTC	5 cut(s)	269, 406, 616, 854, 988
Mox20I	TGGCCA	1 cut(s)	725
MroI	TCCGGA	1 cut(s)	433
MscI	TGGCCA	1 cut(s)	725
MseI	TTAA	4 cut(s)	68, 287, 525, 894
Msp20I	TGGCCA	1 cut(s)	725
MspI	CCGG	3 cut(s)	317, 434, 1084
MspR9I	CCNGG	1 cut(s)	342
MunI	CAATTG	1 cut(s)	60
MvaI	CCWGG	1 cut(s)	342
MwoI	GCNNNNNNNGC	2 cut(s)	241, 753
NdeII	GATC	7 cut(s)	151, 355, 847, 944, 984, 1041, 1066
NlaIII	CATG	5 cut(s)	304, 756, 770, 809, 828
NlaIV	GGNNCC	2 cut(s)	189, 280
NmuCI	GTSAC	1 cut(s)	517
NspI	RCATGY	1 cut(s)	828
PaeI	GCATGC	1 cut(s)	828
PfeI	GAWTC	1 cut(s)	706
PfoI	TCCNGGA	1 cut(s)	340
PinAI	ACCGGT	1 cut(s)	316
PkrI	GCNGC	2 cut(s)	121, 459
Psp6I	CCWGG	1 cut(s)	340
PspGI	CCWGG	1 cut(s)	340
PspN4I	GGNNCC	2 cut(s)	189, 280
PspPI	GGNCC	2 cut(s)	205, 997
PsuI	RGATCY	1 cut(s)	355
RsaI	GTAC	1 cut(s)	280
RsaNI	GTAC	1 cut(s)	279
SaqAI	TTAA	4 cut(s)	68, 287, 525, 894
SatI	GCNGC	2 cut(s)	120, 458
Sau3AI	GATC	7 cut(s)	151, 355, 847, 944, 984, 1041, 1066
Sau96I	GGNCC	2 cut(s)	205, 997
ScrFI	CCNGG	1 cut(s)	342
SfaNI	GCATC	3 cut(s)	138, 387, 765
SinI	GGWCC	1 cut(s)	997
SphI	GCATGC	1 cut(s)	828
SsiI	CCGC	2 cut(s)	466, 1000
SspMI	CTAG	2 cut(s)	90, 236
StyD4I	CCNGG	1 cut(s)	340
StyI	CCWWGG	1 cut(s)	964
TaaI	ACNGT	3 cut(s)	392, 523, 606
TaqI	TCGA	2 cut(s)	621, 943
TfiI	GAWTC	1 cut(s)	706
Tru1I	TTAA	4 cut(s)	68, 287, 525, 894
Tru9I	TTAA	4 cut(s)	68, 287, 525, 894
TscAI	CASTG	5 cut(s)	456, 526, 647, 850, 1042
TseFI	GTSAC	1 cut(s)	517
TseI	GCWGC	2 cut(s)	119, 457
Tsp45I	GTSAC	1 cut(s)	517
TspDTI	ATGAA	2 cut(s)	741, 755
TspGWI	ACGGA	1 cut(s)	803
TspRI	CASTG	5 cut(s)	456, 526, 647, 850, 1042
VpaK11BI	GGWCC	1 cut(s)	997
XapI	RAATTY	4 cut(s)	348, 489, 979, 1050
XceI	RCATGY	1 cut(s)	828
XmiI	GTMKAC	1 cut(s)	55
XspI	CTAG	2 cut(s)	90, 236

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