Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0006588

Physical Location & Seq

Genomic Coordinates Forward (+)

46351425 .. 46356086

Gene Structure 4662 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG249700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1515 bp

ATGAACAACAACAGAGGGAGGTACCCGCCGGGGATCGGAGCCGGTCGCGGCGGCAGCATGAATGCGAACCCTCCGTTTCAGTCTCGGCCGCCGCACCAGCAGCAATATGTACAGAGGAATCTTTTGCCGAACCACCAGCAGCAGCAACAGTACTTTCAGCAACAACAGCACCATCAACAGCAACAGCAGCAGCAGCAGCAGCAGCAACAGTGGCTCAGGAGAGGCCAGTTGGGTGGGAGCACCAGTGCCGATTCCGCCGTCGACGAGGTTGAGAAGACTGTGCAGTCCGAGGCCGTTGATCCAAGTTCGCAAGATTGGAAGGCAAGGTTAAAGATTCCTCCAGCTGATACGCGCTTCAGAACAGAGGATGTTACTGCAACTAAAGGAAATGAGTTTGAGGACTACTTTCTGAAACGTGAGCTACTGATGGGAATATATGAGAAGGGATTTGAAAGGCCATCTCCTATTCAGGAAGAAAGTATACCAATTGCTTTAACTGGTAGTGATATTCTTGCTAGAGCTAAAAATGGAACGGGGAAAACGGCTGCATTTTGCATCCCTGCTTTGGAAAAAATTGATCAAGATAACAATGTAATTCAAGTTGTTATACTGGTTCCAACTCGTGAGTTGGCCCTTCAAACATCACAAGTCTGTAAGGAGCTAGGGAAGCATTTGCAAATACAAGTTATGGTTACTACTGGAGGTACCAGCTTAAAGGATGATATCATGCGTTTATACCAACCGGTTCACTTACTCGTTGGAACTCCTGGAAGAATTTTAGATCTTTCAAAGAAAGGTGTTTGCATCTTGAAAGACTGTTCTATGCTTGTTATGGATGAGGCTGATAAACTTTTGTCTCCGGAGTTTCAACCTTCAGTGGAGCAGCTTATCCGCTTCTTGCCTTCAAATCGGCAAATTTTGATGTTTTCAGCTACATTTCCTGTCACTGTTAAGGACTTCAAAGAAAGATATCTGCACAAGCCTTATGTTATCAATCTTATGGATGAGCTTACTCTAAAGGGTATCACACAGTTCTATGCTTTTGTCGAGGAGAGACAGAAAGTCCACTGCCTAAACACACTTTTCTCCAAGCTTCAAATAAACCAGTCAATCATATTCTGCAATTCTGTGAATCGGGTGGAGTTATTGGCCAAGAAAATTACAGAACTGGGCTATTCATGCTTCTATATTCATGCAAAGATGCTACAAGACCATCGTAACAGAGTATTCCATGACTTCCGTAATGGTGCATGCAGAAATCTTGTTTGCACTGATCTATTTACAAGAGGAATAGATATTCAAGCTGTCAATGTTGTCATTAACTTTGATTTTCCAAAGAACTCAGAGACATATCTGCACAGGGTGGGTCGATCTGGAAGGTTTGGACACCTTGGTTTGGCTGTAAATTTGATCACCTATGAGGACCGCTTCAACTTGTATAGAATTGAGCAAGAACTTGGCACTGAGATCAAGCAAATTCCCCCACATATTGATCAGGCAATTTATTGCCGGTGA

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

504

Amino Acids

57.7

Weight (kDa)

8.67

Isoelectric Point (pI)

46.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	154 - 319	1.6e-47	DEAD/DEAH box helicase
Helicase_C	PF00271	354 - 462	6.1e-32	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: 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)
AasI	GACNNNNNNGTC	1 cut(s)	283
Acc65I	GGTACC	2 cut(s)	21, 704
AccB1I	GGYRCC	2 cut(s)	21, 704
AccI	GTMKAC	2 cut(s)	261, 481
AccII	CGCG	2 cut(s)	48, 352
AccIII	TCCGGA	1 cut(s)	859
AciI	CCGC	8 cut(s)	26, 48, 51, 89, 92, 255, 892, 1426
AclWI	GGATC	2 cut(s)	41, 293
AcoI	YGGCCR	2 cut(s)	86, 1149
AcsI	RAATTY	4 cut(s)	774, 915, 1405, 1476
AcuI	CTGAAG	2 cut(s)	340, 858
AdeI	CACNNNGTG	1 cut(s)	1363
AfaI	GTAC	4 cut(s)	23, 111, 152, 706
AfiI	CCNNNNNNNGG	3 cut(s)	35, 565, 1396
AgeI	ACCGGT	1 cut(s)	742
AhdI	GACNNNNNGTC	1 cut(s)	1061
AjnI	CCWGG	1 cut(s)	766
Alw21I	GWGCWC	1 cut(s)	242
Alw26I	GTCTC	4 cut(s)	87, 861, 1048, 1340
AlwI	GGATC	2 cut(s)	41, 293
Aor13HI	TCCGGA	1 cut(s)	859
AoxI	GGCC	6 cut(s)	86, 223, 291, 455, 630, 1149
ApoI	RAATTY	4 cut(s)	774, 915, 1405, 1476
AsiGI	ACCGGT	1 cut(s)	742
Asp718I	GGTACC	2 cut(s)	21, 704
AspLEI	GCGC	1 cut(s)	354
AspS9I	GGNCC	2 cut(s)	631, 1423
AsuC2I	CCSGG	1 cut(s)	30
AsuHPI	GGTGA	1 cut(s)	1405
AvaII	GGWCC	1 cut(s)	1423
BalI	TGGCCA	1 cut(s)	1151
BanI	GGYRCC	2 cut(s)	21, 704
BarI	GAAGNNNNNNTAC	2 cut(s)	465, 497
BauI	CACGAG	1 cut(s)	621
BbsI	GAAGAC	1 cut(s)	281
Bbv12I	GWGCWC	1 cut(s)	242
BccI	CCATC	4 cut(s)	180, 421, 466, 1221
BceAI	ACGGC	3 cut(s)	242, 278, 558
BciT130I	CCWGG	1 cut(s)	768
BclI	TGATCA	3 cut(s)	577, 1410, 1492
BcnI	CCSGG	1 cut(s)	30
BcoDI	GTCTC	4 cut(s)	87, 861, 1048, 1340
BfaI	CTAG	2 cut(s)	516, 662
BglII	AGATCT	1 cut(s)	781
BmcAI	AGTACT	1 cut(s)	152
Bme1390I	CCNGG	2 cut(s)	30, 768
Bme18I	GGWCC	1 cut(s)	1423
BmeRI	GACNNNNNGTC	1 cut(s)	1061
BmgT120I	GGNCC	2 cut(s)	631, 1423
BmiI	GGNNCC	4 cut(s)	23, 40, 615, 706
BmrFI	CCNGG	2 cut(s)	30, 768
BmrI	ACTGGG	1 cut(s)	1178
BmsI	GCATC	3 cut(s)	564, 813, 1191
BmuI	ACTGGG	1 cut(s)	1178
BpiI	GAAGAC	1 cut(s)	281
BpmI	CTGGAG	2 cut(s)	324, 720
Bpu10I	CCTNAGC	1 cut(s)	215
BpuMI	CCSGG	1 cut(s)	30
BsaJI	CCNNGG	3 cut(s)	29, 288, 1390
BsaWI	WCCGGW	2 cut(s)	742, 859
BsaXI	ACNNNNNCTCC	2 cut(s)	229, 259
Bsc4I	CCNNNNNNNGG	3 cut(s)	35, 565, 1396
Bse118I	RCCGGY	3 cut(s)	41, 742, 1509
Bse1I	ACTGG	7 cut(s)	226, 243, 502, 615, 703, 1105, 1173
BseAI	TCCGGA	1 cut(s)	859
BseBI	CCWGG	1 cut(s)	768
BseDI	CCNNGG	3 cut(s)	29, 288, 1390
BseGI	GGATG	5 cut(s)	373, 555, 724, 841, 1009
BseLI	CCNNNNNNNGG	3 cut(s)	35, 565, 1396
BseMII	CTCAG	3 cut(s)	229, 1356, 1455
BseNI	ACTGG	7 cut(s)	226, 243, 502, 615, 703, 1105, 1173
BseRI	GAGGAG	1 cut(s)	1064
BseX3I	CGGCCG	1 cut(s)	86
BsgI	GTGCAG	3 cut(s)	302, 959, 1340
Bsh1236I	CGCG	2 cut(s)	48, 352
Bsh1285I	CGRYCG	2 cut(s)	46, 89
BshFI	GGCC	6 cut(s)	88, 225, 293, 457, 632, 1151
BshNI	GGYRCC	2 cut(s)	21, 704
BshTI	ACCGGT	1 cut(s)	742
BsiEI	CGRYCG	2 cut(s)	46, 89
BsiHKAI	GWGCWC	1 cut(s)	242
BsiSI	CCGG	5 cut(s)	29, 42, 743, 860, 1510
BslI	CCNNNNNNNGG	3 cut(s)	35, 565, 1396
BsmAI	GTCTC	4 cut(s)	87, 861, 1048, 1340
BsmI	GAATGC	1 cut(s)	67
BsnI	GGCC	6 cut(s)	88, 225, 293, 457, 632, 1151
Bsp1286I	GDGCHC	1 cut(s)	242
Bsp13I	TCCGGA	1 cut(s)	859
Bsp1407I	TGTACA	1 cut(s)	109
Bsp143I	GATC	9 cut(s)	33, 298, 577, 781, 1273, 1370, 1410, 1467, 1492
BspACI	CCGC	8 cut(s)	26, 48, 51, 89, 92, 255, 892, 1426
BspANI	GGCC	6 cut(s)	88, 225, 293, 457, 632, 1151
BspCNI	CTCAG	3 cut(s)	228, 1355, 1456
BspEI	TCCGGA	1 cut(s)	859
BspFNI	CGCG	2 cut(s)	48, 352
BspLI	GGNNCC	4 cut(s)	23, 40, 615, 706
BspPI	GGATC	2 cut(s)	41, 293
BspT107I	GGYRCC	2 cut(s)	21, 704
BsrFI	RCCGGY	3 cut(s)	41, 742, 1509
BsrGI	TGTACA	1 cut(s)	109
BsrI	ACTGG	7 cut(s)	226, 243, 502, 615, 703, 1105, 1173
BssAI	RCCGGY	3 cut(s)	41, 742, 1509
BssECI	CCNNGG	3 cut(s)	29, 288, 1390
BssMI	GATC	9 cut(s)	33, 298, 577, 781, 1273, 1370, 1410, 1467, 1492
BssNAI	GTATAC	1 cut(s)	482
BssSI	CACGAG	1 cut(s)	621
BssT1I	CCWWGG	1 cut(s)	1390
Bst1107I	GTATAC	1 cut(s)	482
Bst2BI	CACGAG	1 cut(s)	621
Bst2UI	CCWGG	1 cut(s)	768
Bst4CI	ACNGT	6 cut(s)	150, 210, 280, 818, 949, 1032
BstAUI	TGTACA	1 cut(s)	109
BstC8I	GCNNGC	1 cut(s)	1252
BstDEI	CTNAG	3 cut(s)	215, 1342, 1464
BstF5I	GGATG	5 cut(s)	373, 555, 724, 841, 1009
BstFNI	CGCG	2 cut(s)	48, 352
BstHHI	GCGC	1 cut(s)	354
BstKTI	GATC	9 cut(s)	36, 301, 580, 784, 1276, 1373, 1413, 1470, 1495
BstMAI	GTCTC	4 cut(s)	87, 861, 1048, 1340
BstMBI	GATC	9 cut(s)	33, 298, 577, 781, 1273, 1370, 1410, 1467, 1492
BstMCI	CGRYCG	2 cut(s)	46, 89
BstNI	CCWGG	1 cut(s)	768
BstNSI	RCATGY	1 cut(s)	1254
BstSCI	CCNGG	2 cut(s)	28, 766
BstUI	CGCG	2 cut(s)	48, 352
BstV2I	GAAGAC	1 cut(s)	281
BstX2I	RGATCY	1 cut(s)	781
BstXI	CCANNNNNNTGG	1 cut(s)	233
BstYI	RGATCY	1 cut(s)	781
BstZ17I	GTATAC	1 cut(s)	482
BstZI	CGGCCG	1 cut(s)	86
BsuRI	GGCC	6 cut(s)	88, 225, 293, 457, 632, 1151
BtsCI	GGATG	5 cut(s)	373, 555, 724, 841, 1009
BtsI	GCAGTG	1 cut(s)	1066
BtsIMutI	CAGTG	7 cut(s)	215, 250, 882, 945, 1066, 1269, 1461
Cac8I	GCNNGC	1 cut(s)	1252
CfoI	GCGC	1 cut(s)	354
Cfr10I	RCCGGY	3 cut(s)	41, 742, 1509
Cfr13I	GGNCC	2 cut(s)	631, 1423
Csp6I	GTAC	4 cut(s)	22, 110, 151, 705
CspAI	ACCGGT	1 cut(s)	742
CviAII	CATG	6 cut(s)	58, 727, 1179, 1193, 1232, 1251
CviQI	GTAC	4 cut(s)	22, 110, 151, 705
DdeI	CTNAG	3 cut(s)	215, 1342, 1464
DpnI	GATC	9 cut(s)	35, 300, 579, 783, 1275, 1372, 1412, 1469, 1494
DpnII	GATC	9 cut(s)	33, 298, 577, 781, 1273, 1370, 1410, 1467, 1492
DraIII	CACNNNGTG	1 cut(s)	1363
DrdI	GACNNNNNNGTC	1 cut(s)	283
DriI	GACNNNNNGTC	1 cut(s)	1061
DseDI	GACNNNNNNGTC	1 cut(s)	283
EaeI	YGGCCR	2 cut(s)	86, 1149
EagI	CGGCCG	1 cut(s)	86
Eam1105I	GACNNNNNGTC	1 cut(s)	1061
EciI	GGCGGA	1 cut(s)	244
EclXI	CGGCCG	1 cut(s)	86
Eco130I	CCWWGG	1 cut(s)	1390
Eco32I	GATATC	2 cut(s)	724, 971
Eco47I	GGWCC	1 cut(s)	1423
Eco52I	CGGCCG	1 cut(s)	86
Eco57I	CTGAAG	2 cut(s)	340, 858
EcoRII	CCWGG	1 cut(s)	766
EcoRV	GATATC	2 cut(s)	724, 971
EcoT14I	CCWWGG	1 cut(s)	1390
ErhI	CCWWGG	1 cut(s)	1390
FaeI	CATG	6 cut(s)	61, 730, 1182, 1196, 1235, 1254
FatI	CATG	6 cut(s)	57, 726, 1178, 1192, 1231, 1250
FauI	CCCGC	1 cut(s)	33
FbaI	TGATCA	3 cut(s)	577, 1410, 1492
FblI	GTMKAC	2 cut(s)	261, 481
FokI	GGATG	5 cut(s)	380, 542, 731, 848, 1016
FspBI	CTAG	2 cut(s)	516, 662
GlaI	GCGC	1 cut(s)	353
GsuI	CTGGAG	2 cut(s)	324, 720
HaeIII	GGCC	6 cut(s)	88, 225, 293, 457, 632, 1151
HapII	CCGG	5 cut(s)	29, 42, 743, 860, 1510
HhaI	GCGC	1 cut(s)	354
Hin1II	CATG	6 cut(s)	61, 730, 1182, 1196, 1235, 1254
Hin6I	GCGC	1 cut(s)	352
HinP1I	GCGC	1 cut(s)	352
HincII	GTYRAC	1 cut(s)	262
HindII	GTYRAC	1 cut(s)	262
HindIII	AAGCTT	1 cut(s)	1091
HinfI	GANTC	4 cut(s)	118, 251, 334, 1132
HpaII	CCGG	5 cut(s)	29, 42, 743, 860, 1510
HphI	GGTGA	1 cut(s)	1405
Hpy166II	GTNNAC	4 cut(s)	262, 482, 748, 1066
Hpy188I	TCNGA	5 cut(s)	38, 289, 359, 411, 1345
Hpy188III	TCNNGA	7 cut(s)	217, 470, 581, 623, 808, 860, 1374
Hpy8I	GTNNAC	4 cut(s)	262, 482, 748, 1066
Hpy99I	CGWCG	2 cut(s)	263, 266
HpyAV	CCTTC	6 cut(s)	313, 436, 644, 882, 912, 1371
HpyCH4III	ACNGT	6 cut(s)	150, 210, 280, 818, 949, 1032
HpyCH4IV	ACGT	1 cut(s)	415
HpyF3I	CTNAG	3 cut(s)	215, 1342, 1464
HpySE526I	ACGT	1 cut(s)	415
Hsp92II	CATG	6 cut(s)	61, 730, 1182, 1196, 1235, 1254
HspAI	GCGC	1 cut(s)	352
Kpn2I	TCCGGA	1 cut(s)	859
KpnI	GGTACC	2 cut(s)	25, 708
Ksp22I	TGATCA	3 cut(s)	577, 1410, 1492
Kzo9I	GATC	9 cut(s)	33, 298, 577, 781, 1273, 1370, 1410, 1467, 1492
LmnI	GCTCC	4 cut(s)	38, 237, 658, 880
LweI	GCATC	3 cut(s)	564, 813, 1191
MaeI	CTAG	2 cut(s)	516, 662
MaeII	ACGT	1 cut(s)	415
MaeIII	GTNAC	4 cut(s)	370, 691, 943, 1217
MalI	GATC	9 cut(s)	35, 300, 579, 783, 1275, 1372, 1412, 1469, 1494
MboI	GATC	9 cut(s)	33, 298, 577, 781, 1273, 1370, 1410, 1467, 1492
MboII	GAAGA	3 cut(s)	286, 485, 783
MfeI	CAATTG	1 cut(s)	486
MflI	RGATCY	1 cut(s)	781
MhlI	GDGCHC	1 cut(s)	242
MlsI	TGGCCA	1 cut(s)	1151
MluNI	TGGCCA	1 cut(s)	1151
MmeI	TCCRAC	2 cut(s)	641, 739
Mox20I	TGGCCA	1 cut(s)	1151
MroI	TCCGGA	1 cut(s)	859
MscI	TGGCCA	1 cut(s)	1151
MseI	TTAA	5 cut(s)	329, 494, 713, 951, 1320
Msp20I	TGGCCA	1 cut(s)	1151
MspA1I	CMGCKG	1 cut(s)	344
MspI	CCGG	5 cut(s)	29, 42, 743, 860, 1510
MspR9I	CCNGG	2 cut(s)	30, 768
MunI	CAATTG	1 cut(s)	486
Mva1269I	GAATGC	1 cut(s)	67
MvaI	CCWGG	1 cut(s)	768
MvnI	CGCG	2 cut(s)	48, 352
NciI	CCSGG	1 cut(s)	30
NdeII	GATC	9 cut(s)	33, 298, 577, 781, 1273, 1370, 1410, 1467, 1492
NlaIII	CATG	6 cut(s)	61, 730, 1182, 1196, 1235, 1254
NlaIV	GGNNCC	4 cut(s)	23, 40, 615, 706
NmeAIII	GCCGAG	1 cut(s)	64
NmuCI	GTSAC	1 cut(s)	943
NspI	RCATGY	1 cut(s)	1254
PaeI	GCATGC	1 cut(s)	1254
PctI	GAATGC	1 cut(s)	67
PfeI	GAWTC	4 cut(s)	118, 251, 334, 1132
PfoI	TCCNGGA	1 cut(s)	766
PinAI	ACCGGT	1 cut(s)	742
Psp6I	CCWGG	1 cut(s)	766
PspGI	CCWGG	1 cut(s)	766
PspN4I	GGNNCC	4 cut(s)	23, 40, 615, 706
PspPI	GGNCC	2 cut(s)	631, 1423
PsuI	RGATCY	1 cut(s)	781
PvuII	CAGCTG	1 cut(s)	344
RsaI	GTAC	4 cut(s)	23, 111, 152, 706
RsaNI	GTAC	4 cut(s)	22, 110, 151, 705
SalI	GTCGAC	1 cut(s)	260
SaqAI	TTAA	5 cut(s)	329, 494, 713, 951, 1320
Sau3AI	GATC	9 cut(s)	33, 298, 577, 781, 1273, 1370, 1410, 1467, 1492
Sau96I	GGNCC	2 cut(s)	631, 1423
ScaI	AGTACT	1 cut(s)	152
ScrFI	CCNGG	2 cut(s)	30, 768
SduI	GDGCHC	1 cut(s)	242
SfaNI	GCATC	3 cut(s)	564, 813, 1191
SgrDI	CGTCGACG	1 cut(s)	260
SinI	GGWCC	1 cut(s)	1423
SphI	GCATGC	1 cut(s)	1254
SsiI	CCGC	8 cut(s)	26, 48, 51, 89, 92, 255, 892, 1426
SspMI	CTAG	2 cut(s)	516, 662
StyD4I	CCNGG	2 cut(s)	28, 766
StyI	CCWWGG	1 cut(s)	1390
TaaI	ACNGT	6 cut(s)	150, 210, 280, 818, 949, 1032
TaiI	ACGT	1 cut(s)	418
TaqI	TCGA	3 cut(s)	261, 1047, 1369
TatI	WGTACW	2 cut(s)	109, 150
TauI	GCSGC	4 cut(s)	51, 54, 91, 94
TfiI	GAWTC	4 cut(s)	118, 251, 334, 1132
Tru1I	TTAA	5 cut(s)	329, 494, 713, 951, 1320
Tru9I	TTAA	5 cut(s)	329, 494, 713, 951, 1320
TscAI	CASTG	7 cut(s)	215, 250, 882, 952, 1073, 1276, 1468
TseFI	GTSAC	1 cut(s)	943
Tsp45I	GTSAC	1 cut(s)	943
TspDTI	ATGAA	4 cut(s)	17, 74, 1167, 1181
TspGWI	ACGGA	2 cut(s)	63, 1229
TspRI	CASTG	7 cut(s)	215, 250, 882, 952, 1073, 1276, 1468
VpaK11BI	GGWCC	1 cut(s)	1423
XapI	RAATTY	4 cut(s)	774, 915, 1405, 1476
XceI	RCATGY	1 cut(s)	1254
XmiI	GTMKAC	2 cut(s)	261, 481
XspI	CTAG	2 cut(s)	516, 662
ZrmI	AGTACT	1 cut(s)	152

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