Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0013476

Physical Location & Seq

Genomic Coordinates Reverse (-)

60561817 .. 60565325

Gene Structure 3509 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG447000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1137 bp

ATGCCCACACCTGTCCAGATGCAAGCAATTCCGGCTGCTTTGCATGGCAAAAACTTGCTTGTCTCTGCTGACACAGGCTCTGGTAAAACTGCTTCCTTTCTGGTTCCAATTGTTTCTTGTTGCTCACATTTTCGCTTTGAGCACTTGACGGACCAGAAAAAGCCGTTAGCTATGGTTCTAACTCCGACCAGAGAGCTCTGTATACAAGTTGAGGAACAAGCTAAGTTGCTTGGAAAGGGTTTGCCTTTTAAAACTGCACTTGTGGTTGGTGGCGACGCAATGCCCAGACAACTTTTCCGCATTCAGCAAGGAGTGGAACTCATTGTGGGAACCCCGGGAAGACTAATTGATCTTTTAGCAAAGCATGATATTGAACTGGAGGATGTAAGGATTTTTGTTCTTGATGAGGTGGATTGCATGCTCCAAAGGGGCTTCCGGGATCAGGTGATGCAGATATTTAGGGCTCTATCACAACCCCAGGTTTTACTGTATTCTGCAACAATCTCCCAAGATATAGAGAAGATGGTGAGCTCTATGTCAAAAGATGTTGCTGTAATCTCTGTTGGCAAGCCTAACAGACCAAATAAGGCTGTGAAGCAGCTGCCTATATGGGTTGAGTCAAAGCAAAAGAAGCAAAAGCTTTTCGACATATTGATGAGTAAGCAGCATTTTATGCCACCTGTTGTGGTTTATGTGGCATCAAGACTTGGGGCGGATCTGTTATCTAATGCAATTACAGTCACCACTGGTGTGAAAGCTTTATCAATCCATGGGGAGAAATCCATGAAGGAGAGGAGAGATATCATGAAGTCATTTTTAATGGGTGATGTTCCTGTTATTGTAGCCACCGGTGTTTTAGGCCGTGGGCTAGATCTCTTGGGTGTAAGACAGGTTATTGTTTTTGACATGCCCAATTCCATTAATGAGTATGTCCACCAGATTGGTAGGGCATCTAGATTAGGAGAAGAGGGTACAGCAATTGTGTTTGTATGTCAGGAGAATAAGAACTTGTTTCCACAATTGGTTGAAATTTTAAGATCTTCTGGTGCAGCTATACCTAGGGAGCTTGTTAGATCACGGTATACGGCATGCCCGTACTCCATTGGCCGAGGCCAGAAGAAAAGAAAGCATGAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 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: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

No pathways identified.

Pfam Domains

Protein Families

DEAD Helicase_C zf-HIT

Protein Analysis

378

Amino Acids

41.87

Weight (kDa)

9.5

Isoelectric Point (pI)

40.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	3 - 174	4.5e-44	DEAD/DEAH box helicase
Helicase_C	PF00271	210 - 321	4.7e-21	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: OG0013476)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G02065 AT3G02065 AT3G02065
fragaria_vesca	FvH4_6g35850 FvH4_6g35850
malus_domestica	MD17G1003800.v1.1
pyrus_communis	pycom17g00050
rosa_chinensis	RchiOBHm_Chr2g0147891
rosa_laevigata	RLG00000020290
rosa_multiflora	Rmu_sc0000308.1_g000058
rosa_roxburghii	Rroxscaffold_2G00099220
rosa_rugosa	Rorug02G0402700 Rorug02G0402800
rosa_samantha	Rh2AG459700 Rh2BG473000 Rh2CG447000 Rh2DG481900
rosa_wichuraiana	Rw2G037600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	202, 1082
AciI	CCGC	2 cut(s)	298, 713
AclWI	GGATC	2 cut(s)	447, 723
AcoI	YGGCCR	1 cut(s)	1105
AcsI	RAATTY	1 cut(s)	1029
AfaI	GTAC	2 cut(s)	973, 1097
AfiI	CCNNNNNNNGG	1 cut(s)	442
AgeI	ACCGGT	1 cut(s)	848
AgsI	TTSAA	2 cut(s)	374, 1028
AjnI	CCWGG	1 cut(s)	477
AleI	CACNNNNGTG	1 cut(s)	749
AluBI	AGCT	9 cut(s)	170, 196, 221, 531, 601, 640, 758, 1052, 1066
AluI	AGCT	9 cut(s)	170, 196, 221, 531, 601, 640, 758, 1052, 1066
Alw21I	GWGCWC	3 cut(s)	144, 198, 533
Alw26I	GTCTC	1 cut(s)	67
AlwI	GGATC	2 cut(s)	447, 723
AlwNI	CAGNNNCTG	1 cut(s)	80
Ama87I	CYCGRG	1 cut(s)	334
AoxI	GGCC	3 cut(s)	859, 1105, 1111
ApeKI	GCWGC	5 cut(s)	35, 598, 601, 664, 1049
ApoI	RAATTY	1 cut(s)	1029
AseI	ATTAAT	1 cut(s)	921
AsiGI	ACCGGT	1 cut(s)	848
AspA2I	CCTAGG	1 cut(s)	1058
AspS9I	GGNCC	1 cut(s)	151
AsuC2I	CCSGG	3 cut(s)	335, 336, 437
AsuHPI	GGTGA	4 cut(s)	457, 538, 733, 836
AvaI	CYCGRG	1 cut(s)	334
AvaII	GGWCC	1 cut(s)	151
AvrII	CCTAGG	1 cut(s)	1058
BanII	GRGCYC	3 cut(s)	198, 466, 533
BarI	GAAGNNNNNNTAC	2 cut(s)	76, 108
BbsI	GAAGAC	1 cut(s)	346
Bbv12I	GWGCWC	3 cut(s)	144, 198, 533
BbvI	GCAGC	5 cut(s)	22, 588, 610, 676, 1061
BccI	CCATC	1 cut(s)	517
BceAI	ACGGC	3 cut(s)	148, 846, 1101
BciT130I	CCWGG	1 cut(s)	479
BcnI	CCSGG	3 cut(s)	335, 336, 437
BcoDI	GTCTC	1 cut(s)	67
BfaI	CTAG	3 cut(s)	869, 954, 1059
BglII	AGATCT	2 cut(s)	871, 1037
BisI	GCNGC	5 cut(s)	36, 599, 602, 665, 1050
BlnI	CCTAGG	1 cut(s)	1058
BlsI	GCNGC	5 cut(s)	37, 600, 603, 666, 1051
Bme1390I	CCNGG	4 cut(s)	335, 336, 437, 479
Bme18I	GGWCC	1 cut(s)	151
BmeT110I	CYCGRG	1 cut(s)	334
BmgT120I	GGNCC	1 cut(s)	151
BmiI	GGNNCC	2 cut(s)	105, 331
BmrFI	CCNGG	4 cut(s)	335, 336, 437, 479
BmsI	GCATC	4 cut(s)	9, 438, 707, 959
BpiI	GAAGAC	1 cut(s)	346
BplI	GAGNNNNNCTC	2 cut(s)	303, 335
BpmI	CTGGAG	1 cut(s)	398
BpuMI	CCSGG	3 cut(s)	335, 336, 437
BsaJI	CCNNGG	7 cut(s)	333, 334, 477, 769, 862, 1058, 1108
BsaWI	WCCGGW	1 cut(s)	848
Bsc4I	CCNNNNNNNGG	1 cut(s)	442
Bse118I	RCCGGY	1 cut(s)	848
Bse1I	ACTGG	2 cut(s)	381, 751
Bse3DI	GCAATG	1 cut(s)	285
BseBI	CCWGG	1 cut(s)	479
BseDI	CCNNGG	7 cut(s)	333, 334, 477, 769, 862, 1058, 1108
BseGI	GGATG	1 cut(s)	388
BseLI	CCNNNNNNNGG	1 cut(s)	442
BseMI	GCAATG	1 cut(s)	285
BseNI	ACTGG	2 cut(s)	381, 751
BseRI	GAGGAG	1 cut(s)	808
BseXI	GCAGC	5 cut(s)	22, 588, 610, 676, 1061
BsgI	GTGCAG	2 cut(s)	240, 1068
BshFI	GGCC	3 cut(s)	861, 1107, 1113
BshTI	ACCGGT	1 cut(s)	848
BsiHKAI	GWGCWC	3 cut(s)	144, 198, 533
BsiHKCI	CYCGRG	1 cut(s)	334
BsiSI	CCGG	4 cut(s)	32, 335, 436, 849
BslI	CCNNNNNNNGG	1 cut(s)	442
BsmAI	GTCTC	1 cut(s)	67
BsmI	GAATGC	1 cut(s)	300
BsnI	GGCC	3 cut(s)	861, 1107, 1113
BsoBI	CYCGRG	1 cut(s)	334
Bsp1286I	GDGCHC	4 cut(s)	144, 198, 466, 533
Bsp143I	GATC	6 cut(s)	349, 439, 715, 871, 1037, 1073
Bsp19I	CCATGG	1 cut(s)	769
BspACI	CCGC	2 cut(s)	298, 713
BspANI	GGCC	3 cut(s)	861, 1107, 1113
BspHI	TCATGA	1 cut(s)	804
BspLI	GGNNCC	2 cut(s)	105, 331
BspPI	GGATC	2 cut(s)	447, 723
BsrDI	GCAATG	1 cut(s)	285
BsrFI	RCCGGY	1 cut(s)	848
BsrI	ACTGG	2 cut(s)	381, 751
BssAI	RCCGGY	1 cut(s)	848
BssECI	CCNNGG	7 cut(s)	333, 334, 477, 769, 862, 1058, 1108
BssMI	GATC	6 cut(s)	349, 439, 715, 871, 1037, 1073
BssNAI	GTATAC	2 cut(s)	203, 1083
BssT1I	CCWWGG	2 cut(s)	769, 1058
Bst1107I	GTATAC	2 cut(s)	203, 1083
Bst2UI	CCWGG	1 cut(s)	479
Bst4CI	ACNGT	3 cut(s)	489, 739, 1080
Bst6I	CTCTTC	1 cut(s)	960
BstAPI	GCANNNNNTGC	1 cut(s)	673
BstC8I	GCNNGC	4 cut(s)	24, 419, 569, 1090
BstDEI	CTNAG	1 cut(s)	222
BstDSI	CCRYGG	2 cut(s)	769, 862
BstF5I	GGATG	1 cut(s)	388
BstKTI	GATC	6 cut(s)	352, 442, 718, 874, 1040, 1076
BstMAI	GTCTC	1 cut(s)	67
BstMBI	GATC	6 cut(s)	349, 439, 715, 871, 1037, 1073
BstMWI	GCNNNNNNNGC	3 cut(s)	32, 631, 673
BstNI	CCWGG	1 cut(s)	479
BstNSI	RCATGY	3 cut(s)	421, 910, 1092
BstSCI	CCNGG	4 cut(s)	333, 334, 435, 477
BstV1I	GCAGC	5 cut(s)	22, 588, 610, 676, 1061
BstV2I	GAAGAC	1 cut(s)	346
BstX2I	RGATCY	3 cut(s)	715, 871, 1037
BstXI	CCANNNNNNTGG	1 cut(s)	941
BstYI	RGATCY	3 cut(s)	715, 871, 1037
BstZ17I	GTATAC	2 cut(s)	203, 1083
BsuRI	GGCC	3 cut(s)	861, 1107, 1113
BtgI	CCRYGG	2 cut(s)	769, 862
BtsCI	GGATG	1 cut(s)	388
BtsIMutI	CAGTG	1 cut(s)	744
Cac8I	GCNNGC	4 cut(s)	24, 419, 569, 1090
CaiI	CAGNNNCTG	1 cut(s)	80
CciI	TCATGA	1 cut(s)	804
Cfr10I	RCCGGY	1 cut(s)	848
Cfr13I	GGNCC	1 cut(s)	151
Cfr9I	CCCGGG	1 cut(s)	334
CseI	GACGC	1 cut(s)	284
Csp6I	GTAC	2 cut(s)	972, 1096
CspAI	ACCGGT	1 cut(s)	848
CviAII	CATG	9 cut(s)	44, 365, 418, 770, 784, 805, 907, 1089, 1130
CviQI	GTAC	2 cut(s)	972, 1096
DdeI	CTNAG	1 cut(s)	222
DpnI	GATC	6 cut(s)	351, 441, 717, 873, 1039, 1075
DpnII	GATC	6 cut(s)	349, 439, 715, 871, 1037, 1073
DraI	TTTAAA	1 cut(s)	250
EaeI	YGGCCR	1 cut(s)	1105
Eam1104I	CTCTTC	1 cut(s)	960
EarI	CTCTTC	1 cut(s)	960
EciI	GGCGGA	1 cut(s)	728
Ecl136II	GAGCTC	2 cut(s)	196, 531
Eco130I	CCWWGG	2 cut(s)	769, 1058
Eco24I	GRGCYC	3 cut(s)	198, 466, 533
Eco32I	GATATC	1 cut(s)	802
Eco47I	GGWCC	1 cut(s)	151
Eco53kI	GAGCTC	2 cut(s)	196, 531
Eco88I	CYCGRG	1 cut(s)	334
EcoICRI	GAGCTC	2 cut(s)	196, 531
EcoRII	CCWGG	1 cut(s)	477
EcoRV	GATATC	1 cut(s)	802
EcoT14I	CCWWGG	2 cut(s)	769, 1058
EcoT38I	GRGCYC	3 cut(s)	198, 466, 533
ErhI	CCWWGG	2 cut(s)	769, 1058
FaeI	CATG	9 cut(s)	47, 368, 421, 773, 787, 808, 910, 1092, 1133
FatI	CATG	9 cut(s)	43, 364, 417, 769, 783, 804, 906, 1088, 1129
FblI	GTMKAC	2 cut(s)	202, 1082
Fnu4HI	GCNGC	5 cut(s)	36, 599, 602, 665, 1050
FokI	GGATG	1 cut(s)	395
FriOI	GRGCYC	3 cut(s)	198, 466, 533
Fsp4HI	GCNGC	5 cut(s)	36, 599, 602, 665, 1050
FspBI	CTAG	3 cut(s)	869, 954, 1059
GluI	GCNGC	5 cut(s)	36, 599, 602, 665, 1050
GsuI	CTGGAG	1 cut(s)	398
HaeIII	GGCC	3 cut(s)	861, 1107, 1113
HapII	CCGG	4 cut(s)	32, 335, 436, 849
HgaI	GACGC	1 cut(s)	284
Hin1II	CATG	9 cut(s)	47, 368, 421, 773, 787, 808, 910, 1092, 1133
HindIII	AAGCTT	2 cut(s)	638, 756
HinfI	GANTC	1 cut(s)	617
HpaII	CCGG	4 cut(s)	32, 335, 436, 849
HphI	GGTGA	4 cut(s)	457, 538, 733, 836
Hpy166II	GTNNAC	3 cut(s)	203, 934, 1083
Hpy188I	TCNGA	1 cut(s)	186
Hpy188III	TCNNGA	6 cut(s)	16, 401, 702, 805, 954, 995
Hpy8I	GTNNAC	3 cut(s)	203, 934, 1083
Hpy99I	CGWCG	1 cut(s)	278
HpyAV	CCTTC	1 cut(s)	781
HpyCH4III	ACNGT	3 cut(s)	489, 739, 1080
HpyCH4V	TGCA	8 cut(s)	22, 43, 257, 417, 451, 497, 731, 1049
HpyF10VI	GCNNNNNNNGC	3 cut(s)	32, 631, 673
HpyF3I	CTNAG	1 cut(s)	222
Hsp92II	CATG	9 cut(s)	47, 368, 421, 773, 787, 808, 910, 1092, 1133
Kzo9I	GATC	6 cut(s)	349, 439, 715, 871, 1037, 1073
LmnI	GCTCC	2 cut(s)	426, 1063
Lsp1109I	GCAGC	5 cut(s)	22, 588, 610, 676, 1061
LweI	GCATC	4 cut(s)	9, 438, 707, 959
MaeI	CTAG	3 cut(s)	869, 954, 1059
MaeIII	GTNAC	1 cut(s)	739
MalI	GATC	6 cut(s)	351, 441, 717, 873, 1039, 1075
MboI	GATC	6 cut(s)	349, 439, 715, 871, 1037, 1073
MboII	GAAGA	5 cut(s)	351, 532, 977, 1032, 1129
MfeI	CAATTG	3 cut(s)	108, 978, 1019
MflI	RGATCY	3 cut(s)	715, 871, 1037
MhlI	GDGCHC	4 cut(s)	144, 198, 466, 533
MluCI	AATT	8 cut(s)	27, 108, 345, 732, 913, 978, 1019, 1029
MlyI	GAGTC	1 cut(s)	626
MmeI	TCCRAC	1 cut(s)	209
MnlI	CCTC	6 cut(s)	205, 373, 400, 786, 961, 1103
MseI	TTAA	4 cut(s)	249, 818, 921, 1034
MslI	CAYNNNNRTG	2 cut(s)	653, 749
MspA1I	CMGCKG	1 cut(s)	601
MspI	CCGG	4 cut(s)	32, 335, 436, 849
MspR9I	CCNGG	4 cut(s)	335, 336, 437, 479
MunI	CAATTG	3 cut(s)	108, 978, 1019
Mva1269I	GAATGC	1 cut(s)	300
MvaI	CCWGG	1 cut(s)	479
MwoI	GCNNNNNNNGC	3 cut(s)	32, 631, 673
NciI	CCSGG	3 cut(s)	335, 336, 437
NcoI	CCATGG	1 cut(s)	769
NdeII	GATC	6 cut(s)	349, 439, 715, 871, 1037, 1073
NlaIII	CATG	9 cut(s)	47, 368, 421, 773, 787, 808, 910, 1092, 1133
NlaIV	GGNNCC	2 cut(s)	105, 331
NmeAIII	GCCGAG	1 cut(s)	1133
NmuCI	GTSAC	1 cut(s)	739
NspI	RCATGY	3 cut(s)	421, 910, 1092
OliI	CACNNNNGTG	1 cut(s)	749
PaeI	GCATGC	2 cut(s)	421, 1092
PagI	TCATGA	1 cut(s)	804
PcsI	WCGNNNNNNNCGW	1 cut(s)	1091
PctI	GAATGC	1 cut(s)	300
PfoI	TCCNGGA	1 cut(s)	435
PinAI	ACCGGT	1 cut(s)	848
PkrI	GCNGC	5 cut(s)	37, 600, 603, 666, 1051
PleI	GAGTC	1 cut(s)	625
PpsI	GAGTC	1 cut(s)	625
PshBI	ATTAAT	1 cut(s)	921
Psp124BI	GAGCTC	2 cut(s)	198, 533
Psp6I	CCWGG	1 cut(s)	477
PspGI	CCWGG	1 cut(s)	477
PspN4I	GGNNCC	2 cut(s)	105, 331
PspPI	GGNCC	1 cut(s)	151
PstNI	CAGNNNCTG	1 cut(s)	80
PsuI	RGATCY	3 cut(s)	715, 871, 1037
PvuII	CAGCTG	1 cut(s)	601
RsaI	GTAC	2 cut(s)	973, 1097
RsaNI	GTAC	2 cut(s)	972, 1096
RseI	CAYNNNNRTG	2 cut(s)	653, 749
SacI	GAGCTC	2 cut(s)	198, 533
SaqAI	TTAA	4 cut(s)	249, 818, 921, 1034
SatI	GCNGC	5 cut(s)	36, 599, 602, 665, 1050
Sau3AI	GATC	6 cut(s)	349, 439, 715, 871, 1037, 1073
Sau96I	GGNCC	1 cut(s)	151
SchI	GAGTC	1 cut(s)	626
ScrFI	CCNGG	4 cut(s)	335, 336, 437, 479
SduI	GDGCHC	4 cut(s)	144, 198, 466, 533
SfaNI	GCATC	4 cut(s)	9, 438, 707, 959
SgrAI	CRCCGGYG	1 cut(s)	848
SinI	GGWCC	1 cut(s)	151
SmaI	CCCGGG	1 cut(s)	336
SmiMI	CAYNNNNRTG	2 cut(s)	653, 749
SphI	GCATGC	2 cut(s)	421, 1092
Sse9I	AATT	8 cut(s)	27, 108, 345, 732, 913, 978, 1019, 1029
SsiI	CCGC	2 cut(s)	298, 713
SspMI	CTAG	3 cut(s)	869, 954, 1059
SstI	GAGCTC	2 cut(s)	198, 533
StyD4I	CCNGG	4 cut(s)	333, 334, 435, 477
StyI	CCWWGG	2 cut(s)	769, 1058
TaaI	ACNGT	3 cut(s)	489, 739, 1080
TaqI	TCGA	1 cut(s)	645
TasI	AATT	8 cut(s)	27, 108, 345, 732, 913, 978, 1019, 1029
Tru1I	TTAA	4 cut(s)	249, 818, 921, 1034
Tru9I	TTAA	4 cut(s)	249, 818, 921, 1034
TscAI	CASTG	1 cut(s)	751
TseFI	GTSAC	1 cut(s)	739
TseI	GCWGC	5 cut(s)	35, 598, 601, 664, 1049
Tsp45I	GTSAC	1 cut(s)	739
TspDTI	ATGAA	2 cut(s)	800, 821
TspGWI	ACGGA	1 cut(s)	164
TspMI	CCCGGG	1 cut(s)	334
TspRI	CASTG	1 cut(s)	751
VpaK11BI	GGWCC	1 cut(s)	151
VspI	ATTAAT	1 cut(s)	921
XapI	RAATTY	1 cut(s)	1029
XbaI	TCTAGA	1 cut(s)	953
XceI	RCATGY	3 cut(s)	421, 910, 1092
XmaI	CCCGGG	1 cut(s)	334
XmaJI	CCTAGG	1 cut(s)	1058
XmiI	GTMKAC	2 cut(s)	202, 1082
XspI	CTAG	3 cut(s)	869, 954, 1059

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