Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0001177

Physical Location & Seq

Genomic Coordinates Forward (+)

28513130 .. 28513813

Gene Structure 684 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00406100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 684 bp

ATGTCAGAGAAACAAGGCTTGAATGGAGGCTACTACGGCCCATCCATCCCGCCCAAGAGGGAGTCCTACCAAAGCGTCGGCCGCGGCGGAGGTCCCCTCGGCTGCTGCTGCAGCTGTATTTTCGGCCTCGTCTTCAAGCTCATCTTCACCGCCATCGTCTTCATGGGCCTCGCCTTCTTCGTCTTCTGGCTCATAGTCAAACCTAACCGTGTCAAGTTCCACGTCACCGACGCCACCCTCACCCAGTTCAACTTCTCATCCGACAACAACCTCCACTACAACCTCGCCCTCAACCTCACCATCCGAAACCCTAACAAAAAGCTCGGCATCTACTACGACCGCATCGAAGCCAGAGCTAACTACGAGGGCCAGAGGTTCAGCACGATCACTCTTACCCCGTTTTACCAAGGACACAAAACCACCAACGTTTTGAACCCCGTGTTTAATGGACAGCAGTTGCTTGTTGGGTCCAATTTGCAGTCGGAGTATCAAAAGCAGACAACTGCTGGGGTTTACGAGATTGAGATGAAGCTTTACTTGAGGATTCGGTTCAAGTTCGGTCGGATCAAGACCGGAAAGTTCAAGCCCAGAGTTGAATGTGATTTGAAGGTTCCTTTGAGTACGAATGGGAATTCCGCAACTACTTTTGAGACCAAGAGGTGCAAAATTGATTACTTCAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LEA_2

Protein Analysis

227

Amino Acids

25.83

Weight (kDa)

9.66

Isoelectric Point (pI)

34.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LEA_2	PF03168	99 - 199	1.6e-09	Late embryogenesis abundant protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0001177)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G35460 AT2G35980 AT3G11650 AT5G06320
fragaria_vesca	FvH4_6g20130 FvH4_6g20140
malus_domestica	MD12G1038600.v1.1 MD14G1037300.v1.1
prunus_persica	Prupe.6G357300_v2.0.a1 Prupe.7G097200_v2.0.a1
pyrus_communis	pycom14g03260
rosa_chinensis	RchiOBHm_Chr3g0475591 RchiOBHm_Chr3g0475631 RchiOBHm_Chr3g0475641 RchiOBHm_Chr3g0475651 RchiOBHm_Chr3g0475661
rosa_laevigata	RLG00000023825 RLG00000023826 RLG00000023827 RLG00000023828 RLG00000023830
rosa_multiflora	Rmu_co8195028.1_g000001 Rmu_sc0000539.1_g000033 Rmu_sc0000539.1_g000043 Rmu_sc0000539.1_g000048 Rmu_sc0000539.1_g000055
rosa_roxburghii	Rroxscaffold_6G00406030 Rroxscaffold_6G00406040 Rroxscaffold_6G00406070 Rroxscaffold_6G00406080 Rroxscaffold_6G00406100 Rroxscaffold_6G00406110
rosa_rugosa	Rorug03G0150500 Rorug03G0150500 Rorug03G0150600 Rorug03G0150700 Rorug03G0150800 Rorug03G0150800
rosa_samantha	Rh3AG200100 Rh3AG200200 Rh3AG200300 Rh3BG230500 Rh3BG230600 Rh3BG230700 Rh3CG224800 Rh3CG225000 Rh3CG225100 Rh3CG225200 Rh3CG225300 Rh3DG225600 Rh3DG225700 Rh3DG225800
rosa_wichuraiana	Rw3G018150 Rw3G018170 Rw3G018180 Rw3G018190 Rw3G018200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	84
AciI	CCGC	7 cut(s)	50, 82, 84, 87, 150, 340, 636
AclI	AACGTT	1 cut(s)	426
AclWI	GGATC	1 cut(s)	572
AcoI	YGGCCR	1 cut(s)	79
AcsI	RAATTY	1 cut(s)	631
AcyI	GRCGYC	1 cut(s)	231
AfaI	GTAC	1 cut(s)	622
AgsI	TTSAA	9 cut(s)	22, 136, 250, 433, 553, 583, 596, 607, 679
AjiI	CACGTC	1 cut(s)	223
AluBI	AGCT	5 cut(s)	114, 139, 322, 356, 532
AluI	AGCT	5 cut(s)	114, 139, 322, 356, 532
Alw26I	GTCTC	1 cut(s)	644
AlwI	GGATC	1 cut(s)	572
AoxI	GGCC	5 cut(s)	37, 79, 124, 166, 367
ApeKI	GCWGC	4 cut(s)	102, 105, 108, 111
ApoI	RAATTY	1 cut(s)	631
AspS9I	GGNCC	5 cut(s)	38, 92, 166, 367, 468
AsuHPI	GGTGA	4 cut(s)	139, 217, 232, 289
AvaII	GGWCC	2 cut(s)	92, 468
BbsI	GAAGAC	3 cut(s)	124, 151, 175
BbvI	GCAGC	4 cut(s)	89, 92, 95, 123
BccI	CCATC	4 cut(s)	49, 53, 161, 308
BceAI	ACGGC	1 cut(s)	52
BcoDI	GTCTC	1 cut(s)	644
BfmI	CTRYAG	1 cut(s)	109
BisI	GCNGC	6 cut(s)	82, 85, 103, 106, 109, 112
BlsI	GCNGC	6 cut(s)	83, 86, 104, 107, 110, 113
Bme18I	GGWCC	2 cut(s)	92, 468
BmgBI	CACGTC	1 cut(s)	223
BmgT120I	GGNCC	5 cut(s)	38, 92, 166, 367, 468
BmiI	GGNNCC	3 cut(s)	94, 469, 612
BmrI	ACTGGG	1 cut(s)	238
BmsI	GCATC	2 cut(s)	336, 351
BmuI	ACTGGG	1 cut(s)	238
BpiI	GAAGAC	3 cut(s)	124, 151, 175
BplI	GAGNNNNNCTC	2 cut(s)	81, 113
BpuEI	CTTGAG	1 cut(s)	559
BsaHI	GRCGYC	1 cut(s)	231
BsaI	GGTCTC	1 cut(s)	644
BsaJI	CCNNGG	3 cut(s)	82, 97, 406
BsaWI	WCCGGW	1 cut(s)	572
Bse1I	ACTGG	1 cut(s)	244
BseDI	CCNNGG	3 cut(s)	82, 97, 406
BseGI	GGATG	4 cut(s)	41, 45, 257, 300
BseNI	ACTGG	1 cut(s)	244
BseX3I	CGGCCG	1 cut(s)	79
BseXI	GCAGC	4 cut(s)	89, 92, 95, 123
BseYI	CCCAGC	1 cut(s)	506
Bsh1236I	CGCG	1 cut(s)	84
Bsh1285I	CGRYCG	3 cut(s)	82, 340, 562
BshFI	GGCC	5 cut(s)	39, 81, 126, 168, 369
BsiEI	CGRYCG	3 cut(s)	82, 340, 562
BsiSI	CCGG	1 cut(s)	573
BslFI	GGGAC	1 cut(s)	78
BsmAI	GTCTC	1 cut(s)	644
BsmFI	GGGAC	1 cut(s)	78
BsnI	GGCC	5 cut(s)	39, 81, 126, 168, 369
Bso31I	GGTCTC	1 cut(s)	644
Bsp143I	GATC	2 cut(s)	384, 564
BspACI	CCGC	7 cut(s)	50, 82, 84, 87, 150, 340, 636
BspANI	GGCC	5 cut(s)	39, 81, 126, 168, 369
BspFNI	CGCG	1 cut(s)	84
BspLI	GGNNCC	3 cut(s)	94, 469, 612
BspMAI	CTGCAG	1 cut(s)	113
BspPI	GGATC	1 cut(s)	572
BspTNI	GGTCTC	1 cut(s)	644
BsrI	ACTGG	1 cut(s)	244
BssECI	CCNNGG	3 cut(s)	82, 97, 406
BssMI	GATC	2 cut(s)	384, 564
BssNI	GRCGYC	1 cut(s)	231
BssT1I	CCWWGG	1 cut(s)	406
Bst4CI	ACNGT	1 cut(s)	209
BstACI	GRCGYC	1 cut(s)	231
BstDSI	CCRYGG	1 cut(s)	82
BstF5I	GGATG	4 cut(s)	41, 45, 257, 300
BstFNI	CGCG	1 cut(s)	84
BstKTI	GATC	2 cut(s)	387, 567
BstMAI	GTCTC	1 cut(s)	644
BstMBI	GATC	2 cut(s)	384, 564
BstMCI	CGRYCG	3 cut(s)	82, 340, 562
BstMWI	GCNNNNNNNGC	4 cut(s)	36, 81, 108, 111
BstSFI	CTRYAG	1 cut(s)	109
BstUI	CGCG	1 cut(s)	84
BstV1I	GCAGC	4 cut(s)	89, 92, 95, 123
BstV2I	GAAGAC	3 cut(s)	124, 151, 175
BstZI	CGGCCG	1 cut(s)	79
BsuRI	GGCC	5 cut(s)	39, 81, 126, 168, 369
BtgI	CCRYGG	1 cut(s)	82
BtrI	CACGTC	1 cut(s)	223
BtsCI	GGATG	4 cut(s)	41, 45, 257, 300
Cfr13I	GGNCC	5 cut(s)	38, 92, 166, 367, 468
Cfr42I	CCGCGG	1 cut(s)	85
CseI	GACGC	2 cut(s)	64, 239
Csp6I	GTAC	1 cut(s)	621
CviAII	CATG	1 cut(s)	163
CviQI	GTAC	1 cut(s)	621
DpnI	GATC	2 cut(s)	386, 566
DpnII	GATC	2 cut(s)	384, 564
EaeI	YGGCCR	1 cut(s)	79
EagI	CGGCCG	1 cut(s)	79
EciI	GGCGGA	1 cut(s)	102
EclXI	CGGCCG	1 cut(s)	79
Eco130I	CCWWGG	1 cut(s)	406
Eco31I	GGTCTC	1 cut(s)	644
Eco47I	GGWCC	2 cut(s)	92, 468
Eco52I	CGGCCG	1 cut(s)	79
EcoO109I	RGGNCCY	1 cut(s)	92
EcoRI	GAATTC	1 cut(s)	631
EcoT14I	CCWWGG	1 cut(s)	406
ErhI	CCWWGG	1 cut(s)	406
FaeI	CATG	1 cut(s)	166
FaiI	YATR	2 cut(s)	164, 194
FalI	AAGNNNNNCTT	4 cut(s)	128, 160, 521, 553
FaqI	GGGAC	1 cut(s)	78
FatI	CATG	1 cut(s)	162
FauI	CCCGC	1 cut(s)	57
Fnu4HI	GCNGC	6 cut(s)	82, 85, 103, 106, 109, 112
FokI	GGATG	4 cut(s)	28, 32, 244, 287
Fsp4HI	GCNGC	6 cut(s)	82, 85, 103, 106, 109, 112
GluI	GCNGC	6 cut(s)	82, 85, 103, 106, 109, 112
GsaI	CCCAGC	1 cut(s)	510
HaeIII	GGCC	5 cut(s)	39, 81, 126, 168, 369
HapII	CCGG	1 cut(s)	573
HgaI	GACGC	2 cut(s)	64, 239
Hin1I	GRCGYC	1 cut(s)	231
Hin1II	CATG	1 cut(s)	166
HindIII	AAGCTT	1 cut(s)	530
HinfI	GANTC	2 cut(s)	62, 544
HpaII	CCGG	1 cut(s)	573
HphI	GGTGA	4 cut(s)	139, 217, 232, 289
Hpy166II	GTNNAC	1 cut(s)	514
Hpy188I	TCNGA	5 cut(s)	7, 262, 305, 484, 564
Hpy188III	TCNNGA	1 cut(s)	568
Hpy8I	GTNNAC	1 cut(s)	514
Hpy99I	CGWCG	2 cut(s)	80, 233
HpyAV	CCTTC	2 cut(s)	184, 601
HpyCH4III	ACNGT	1 cut(s)	209
HpyCH4IV	ACGT	2 cut(s)	222, 426
HpyCH4V	TGCA	3 cut(s)	111, 478, 663
HpyF10VI	GCNNNNNNNGC	4 cut(s)	36, 81, 108, 111
HpySE526I	ACGT	2 cut(s)	222, 426
Hsp92I	GRCGYC	1 cut(s)	231
Hsp92II	CATG	1 cut(s)	166
KspI	CCGCGG	1 cut(s)	85
Kzo9I	GATC	2 cut(s)	384, 564
LpnPI	CCDG	7 cut(s)	172, 257, 364, 383, 492, 586, 601
Lsp1109I	GCAGC	4 cut(s)	89, 92, 95, 123
LweI	GCATC	2 cut(s)	336, 351
MaeII	ACGT	2 cut(s)	222, 426
MaeIII	GTNAC	1 cut(s)	223
MalI	GATC	2 cut(s)	386, 566
MboI	GATC	2 cut(s)	384, 564
MboII	GAAGA	5 cut(s)	124, 136, 151, 169, 175
MluCI	AATT	4 cut(s)	472, 631, 666, 679
MlyI	GAGTC	1 cut(s)	71
MmeI	TCCRAC	3 cut(s)	285, 462, 542
MseI	TTAA	1 cut(s)	444
MspA1I	CMGCKG	2 cut(s)	84, 114
MspI	CCGG	1 cut(s)	573
MvnI	CGCG	1 cut(s)	84
MwoI	GCNNNNNNNGC	4 cut(s)	36, 81, 108, 111
NdeII	GATC	2 cut(s)	384, 564
NlaIII	CATG	1 cut(s)	166
NlaIV	GGNNCC	3 cut(s)	94, 469, 612
NmeAIII	GCCGAG	2 cut(s)	78, 303
NmuCI	GTSAC	1 cut(s)	223
PcsI	WCGNNNNNNNCGW	2 cut(s)	177, 342
PfeI	GAWTC	1 cut(s)	544
PkrI	GCNGC	6 cut(s)	83, 86, 104, 107, 110, 113
PleI	GAGTC	1 cut(s)	70
PpsI	GAGTC	1 cut(s)	70
PpuMI	RGGWCCY	1 cut(s)	92
Psp1406I	AACGTT	1 cut(s)	426
Psp5II	RGGWCCY	1 cut(s)	92
PspFI	CCCAGC	1 cut(s)	506
PspN4I	GGNNCC	3 cut(s)	94, 469, 612
PspPI	GGNCC	5 cut(s)	38, 92, 166, 367, 468
PspPPI	RGGWCCY	1 cut(s)	92
PstI	CTGCAG	1 cut(s)	113
PvuII	CAGCTG	1 cut(s)	114
RsaI	GTAC	1 cut(s)	622
RsaNI	GTAC	1 cut(s)	621
SacII	CCGCGG	1 cut(s)	85
SaqAI	TTAA	1 cut(s)	444
SatI	GCNGC	6 cut(s)	82, 85, 103, 106, 109, 112
Sau3AI	GATC	2 cut(s)	384, 564
Sau96I	GGNCC	5 cut(s)	38, 92, 166, 367, 468
SchI	GAGTC	1 cut(s)	71
SfaNI	GCATC	2 cut(s)	336, 351
SfcI	CTRYAG	1 cut(s)	109
Sfr303I	CCGCGG	1 cut(s)	85
SgrBI	CCGCGG	1 cut(s)	85
SinI	GGWCC	2 cut(s)	92, 468
SmlI	CTYRAG	1 cut(s)	538
SmoI	CTYRAG	1 cut(s)	538
Sse9I	AATT	4 cut(s)	472, 631, 666, 679
SsiI	CCGC	7 cut(s)	50, 82, 84, 87, 150, 340, 636
StyI	CCWWGG	1 cut(s)	406
TaaI	ACNGT	1 cut(s)	209
TaiI	ACGT	2 cut(s)	225, 429
TaqI	TCGA	1 cut(s)	345
TaqII	GACCGA	1 cut(s)	548
TasI	AATT	4 cut(s)	472, 631, 666, 679
TauI	GCSGC	2 cut(s)	84, 87
TfiI	GAWTC	1 cut(s)	544
Tru1I	TTAA	1 cut(s)	444
Tru9I	TTAA	1 cut(s)	444
TseFI	GTSAC	1 cut(s)	223
TseI	GCWGC	4 cut(s)	102, 105, 108, 111
Tsp45I	GTSAC	1 cut(s)	223
TspDTI	ATGAA	2 cut(s)	151, 542
VpaK11BI	GGWCC	2 cut(s)	92, 468
XapI	RAATTY	1 cut(s)	631
XcmI	CCANNNNNNNNNTGG	1 cut(s)	160

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