Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0017447

Physical Location & Seq

Genomic Coordinates Forward (+)

46394039 .. 46395332

Gene Structure 1294 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000003272

Sequence Viewer

CDS Protein Promoter (2k)

Length: 891 bp

ATGACGTCAGCAGCTCGTTTCATGGACGCATCCGGTATTTCAATCGTGGAAATGAAAATTCCAAGACAAGCTCTCTCCCCACTCGATCAGTTTTCCCGCGCTCCCAATTCCCTCAATTTTCTAGGGTTTTATCTCTCTCTCAAAAAACAAAAAACAAAAAAGTTGCTAGGGTTTCCCTATTTAAACTCCCACCTCTCCAAAACCTCCCACTCTATCGACTCAACCCTCTCTCTTTCAAGGCCAACCAAACCCTTCAGTTTTCCGGCGATGGACACGAGGCAAACGGAGGGGGCGATACTGAAGATCACGACGGACTTTGTTGACGACAACTGTAAGCCTATCCTGCAAGTGATCTACTTGAAGCAGATCCACACACAGCACGGCAGCGGCGGCGGCGGCTCTGAGCGGTACAGGCTGGCCGTGTCCGATGGGTCCCACATCCGGCAGGCGAAGCTGGCCGCTCACCTGAACTTCCTGGTTCGGCAAGGCCACCTTCAAAAGGGCTCCGTTGTCCGCCTGGATCAATTCACCTGCACCGCCATCCAAGGCCGCAAGATCATCATTATTGTCTCATTGAATGTGCTAGTTGAAAAATGTGATATCATTGGACGGGCTGCCAGATTTTCGAATGCACAATCCCCACGGACAAGACTTGTAGATCAAACAACTGAGACAATTATAAGCGAACCCTACAGTCTTCCGGCGATGGACACGAGGCTAACGGAGGGGGCGATACTGAACATCACGACGTTGGATTTTGGAGACAACTATAAGCCTATCCTGCAAGTGATCGACTTGAAGCAGATCGACACACCCCGCGTCGGCCACGGCGGCCTGAACGCTGAGCGGTACAAGGTGGCCATATCCGATGGGTCCCCAGCACCCGGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03030 ko03420 ko03430 ko03440 ko03460 map03030 map03420 map03430 map03440 map03460

Pfam Domains

Protein Families

REPA_OB_2 Rep-A_N Rep_fac-A_C tRNA_anti-codon zf-CCHC

Protein Analysis

297

Amino Acids

32.56

Weight (kDa)

9.63

Isoelectric Point (pI)

32.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rep-A_N	PF04057	95 - 196	5.9e-27	Replication factor-A protein 1, N-terminal domain
Rep-A_N	PF04057	240 - 292	8.2e-07	Replication factor-A protein 1, N-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: OG0017447)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr7g0207931
rosa_laevigata	RLG00000003272 RLG00000003274
rosa_multiflora	Rmu_sc0000905.1_g000017 Rmu_sc0006577.1_g000009 Rmu_sc0006577.1_g000012
rosa_roxburghii	Rroxscaffold_3G00251000
rosa_rugosa	Rorug07G0100300
rosa_samantha	Rh7AG233900 Rh7AG236000 Rh7BG229500 Rh7CG249100 Rh7DG239900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	680
AarI	CACCTGC	1 cut(s)	539
AatII	GACGTC	1 cut(s)	8
Acc36I	ACCTGC	1 cut(s)	539
AccBSI	CCGCTC	3 cut(s)	406, 461, 847
AccII	CGCG	2 cut(s)	99, 819
AclWI	GGATC	2 cut(s)	361, 528
AcoI	YGGCCR	4 cut(s)	417, 456, 823, 858
AcsI	RAATTY	1 cut(s)	57
AcuI	CTGAAG	2 cut(s)	238, 320
AcyI	GRCGYC	1 cut(s)	5
AfaI	GTAC	2 cut(s)	410, 851
AfiI	CCNNNNNNNGG	4 cut(s)	441, 499, 821, 884
AgsI	TTSAA	7 cut(s)	42, 237, 361, 497, 577, 590, 799
AjnI	CCWGG	2 cut(s)	474, 516
AluBI	AGCT	3 cut(s)	14, 71, 454
AluI	AGCT	3 cut(s)	14, 71, 454
Alw26I	GTCTC	3 cut(s)	574, 665, 756
AlwI	GGATC	2 cut(s)	361, 528
AoxI	GGCC	8 cut(s)	239, 417, 456, 487, 547, 823, 832, 858
ApeKI	GCWGC	3 cut(s)	11, 384, 614
ApoI	RAATTY	1 cut(s)	57
AspLEI	GCGC	1 cut(s)	101
AspS9I	GGNCC	2 cut(s)	432, 873
AsuC2I	CCSGG	1 cut(s)	885
AsuHPI	GGTGA	2 cut(s)	455, 520
AsuII	TTCGAA	1 cut(s)	626
AvaII	GGWCC	2 cut(s)	432, 873
BalI	TGGCCA	1 cut(s)	860
BanII	GRGCYC	1 cut(s)	506
BauI	CACGAG	2 cut(s)	274, 712
BbsI	GAAGAC	1 cut(s)	689
BbvI	GCAGC	3 cut(s)	23, 396, 601
BccI	CCATC	5 cut(s)	262, 422, 548, 700, 863
BceAI	ACGGC	3 cut(s)	397, 404, 844
BciT130I	CCWGG	2 cut(s)	476, 518
BcnI	CCSGG	1 cut(s)	885
BcoDI	GTCTC	3 cut(s)	574, 665, 756
BfaI	CTAG	3 cut(s)	122, 167, 584
BfmI	CTRYAG	1 cut(s)	691
BfuAI	ACCTGC	1 cut(s)	539
BglI	GCCNNNNNGGC	1 cut(s)	831
BlpI	GCTNAGC	1 cut(s)	843
Bme1390I	CCNGG	3 cut(s)	476, 518, 885
Bme18I	GGWCC	2 cut(s)	432, 873
BmgT120I	GGNCC	2 cut(s)	432, 873
BmiI	GGNNCC	5 cut(s)	433, 434, 505, 874, 875
BmrFI	CCNGG	3 cut(s)	476, 518, 885
BmsI	GCATC	1 cut(s)	38
BpiI	GAAGAC	1 cut(s)	689
Bpu1102I	GCTNAGC	1 cut(s)	843
Bpu14I	TTCGAA	1 cut(s)	626
BpuMI	CCSGG	1 cut(s)	885
BsaHI	GRCGYC	1 cut(s)	5
BsaJI	CCNNGG	3 cut(s)	544, 641, 826
BsaWI	WCCGGW	1 cut(s)	32
Bsc4I	CCNNNNNNNGG	4 cut(s)	441, 499, 821, 884
BseBI	CCWGG	2 cut(s)	476, 518
BseDI	CCNNGG	3 cut(s)	544, 641, 826
BseGI	GGATG	3 cut(s)	29, 438, 540
BseLI	CCNNNNNNNGG	4 cut(s)	441, 499, 821, 884
BseMII	CTCAG	3 cut(s)	393, 660, 834
BseXI	GCAGC	3 cut(s)	23, 396, 601
BseYI	CCCAGC	1 cut(s)	877
BsgI	GTGCAG	1 cut(s)	517
Bsh1236I	CGCG	2 cut(s)	99, 819
BshFI	GGCC	8 cut(s)	241, 419, 458, 489, 549, 825, 834, 860
BsiSI	CCGG	5 cut(s)	33, 263, 442, 701, 885
BslFI	GGGAC	2 cut(s)	418, 859
BslI	CCNNNNNNNGG	4 cut(s)	441, 499, 821, 884
BsmAI	GTCTC	3 cut(s)	574, 665, 756
BsmFI	GGGAC	2 cut(s)	418, 859
BsmI	GAATGC	1 cut(s)	634
BsnI	GGCC	8 cut(s)	241, 419, 458, 489, 549, 825, 834, 860
Bsp119I	TTCGAA	1 cut(s)	626
Bsp1286I	GDGCHC	1 cut(s)	506
Bsp143I	GATC	9 cut(s)	85, 303, 351, 366, 520, 555, 658, 789, 804
Bsp1720I	GCTNAGC	1 cut(s)	843
BspANI	GGCC	8 cut(s)	241, 419, 458, 489, 549, 825, 834, 860
BspCNI	CTCAG	3 cut(s)	394, 661, 835
BspFNI	CGCG	2 cut(s)	99, 819
BspLI	GGNNCC	5 cut(s)	433, 434, 505, 874, 875
BspMI	ACCTGC	1 cut(s)	539
BspPI	GGATC	2 cut(s)	361, 528
BspT104I	TTCGAA	1 cut(s)	626
BsrBI	CCGCTC	3 cut(s)	406, 461, 847
BssECI	CCNNGG	3 cut(s)	544, 641, 826
BssMI	GATC	9 cut(s)	85, 303, 351, 366, 520, 555, 658, 789, 804
BssNI	GRCGYC	1 cut(s)	5
BssSI	CACGAG	2 cut(s)	274, 712
BssT1I	CCWWGG	1 cut(s)	544
Bst2BI	CACGAG	2 cut(s)	274, 712
Bst2UI	CCWGG	2 cut(s)	476, 518
Bst4CI	ACNGT	2 cut(s)	332, 695
BstACI	GRCGYC	1 cut(s)	5
BstBI	TTCGAA	1 cut(s)	626
BstC8I	GCNNGC	3 cut(s)	417, 447, 456
BstDEI	CTNAG	3 cut(s)	402, 669, 843
BstDSI	CCRYGG	2 cut(s)	641, 826
BstENI	CCTNNNNNAGG	1 cut(s)	497
BstF5I	GGATG	3 cut(s)	29, 438, 540
BstFNI	CGCG	2 cut(s)	99, 819
BstHHI	GCGC	1 cut(s)	101
BstKTI	GATC	9 cut(s)	88, 306, 354, 369, 523, 558, 661, 792, 807
BstMAI	GTCTC	3 cut(s)	574, 665, 756
BstMBI	GATC	9 cut(s)	85, 303, 351, 366, 520, 555, 658, 789, 804
BstMWI	GCNNNNNNNGC	9 cut(s)	343, 390, 393, 396, 412, 451, 455, 781, 831
BstNI	CCWGG	2 cut(s)	476, 518
BstSCI	CCNGG	3 cut(s)	474, 516, 883
BstSFI	CTRYAG	1 cut(s)	691
BstUI	CGCG	2 cut(s)	99, 819
BstV1I	GCAGC	3 cut(s)	23, 396, 601
BstV2I	GAAGAC	1 cut(s)	689
BstX2I	RGATCY	1 cut(s)	366
BstYI	RGATCY	1 cut(s)	366
BsuRI	GGCC	8 cut(s)	241, 419, 458, 489, 549, 825, 834, 860
BtgI	CCRYGG	2 cut(s)	641, 826
BtgZI	GCGATG	2 cut(s)	281, 719
BtsCI	GGATG	3 cut(s)	29, 438, 540
BveI	ACCTGC	1 cut(s)	539
Cac8I	GCNNGC	3 cut(s)	417, 447, 456
CfoI	GCGC	1 cut(s)	101
Cfr13I	GGNCC	2 cut(s)	432, 873
CseI	GACGC	2 cut(s)	35, 808
Csp6I	GTAC	2 cut(s)	409, 850
CviAII	CATG	1 cut(s)	22
CviQI	GTAC	2 cut(s)	409, 850
DdeI	CTNAG	3 cut(s)	402, 669, 843
DpnI	GATC	9 cut(s)	87, 305, 353, 368, 522, 557, 660, 791, 806
DpnII	GATC	9 cut(s)	85, 303, 351, 366, 520, 555, 658, 789, 804
DraI	TTTAAA	1 cut(s)	183
EaeI	YGGCCR	4 cut(s)	417, 456, 823, 858
EciI	GGCGGA	1 cut(s)	503
Eco130I	CCWWGG	1 cut(s)	544
Eco24I	GRGCYC	1 cut(s)	506
Eco32I	GATATC	1 cut(s)	601
Eco47I	GGWCC	2 cut(s)	432, 873
Eco57I	CTGAAG	2 cut(s)	238, 320
EcoNI	CCTNNNNNAGG	1 cut(s)	497
EcoO109I	RGGNCCY	2 cut(s)	432, 873
EcoRII	CCWGG	2 cut(s)	474, 516
EcoRV	GATATC	1 cut(s)	601
EcoT14I	CCWWGG	1 cut(s)	544
EcoT38I	GRGCYC	1 cut(s)	506
ErhI	CCWWGG	1 cut(s)	544
FaeI	CATG	1 cut(s)	25
FaiI	YATR	4 cut(s)	23, 680, 771, 863
FalI	AAGNNNNNCTT	2 cut(s)	477, 509
FaqI	GGGAC	2 cut(s)	418, 859
FatI	CATG	1 cut(s)	21
FauI	CCCGC	2 cut(s)	104, 824
FokI	GGATG	3 cut(s)	16, 425, 527
FriOI	GRGCYC	1 cut(s)	506
FspBI	CTAG	3 cut(s)	122, 167, 584
GlaI	GCGC	1 cut(s)	100
GsaI	CCCAGC	1 cut(s)	881
HaeIII	GGCC	8 cut(s)	241, 419, 458, 489, 549, 825, 834, 860
HapII	CCGG	5 cut(s)	33, 263, 442, 701, 885
HgaI	GACGC	2 cut(s)	35, 808
HhaI	GCGC	1 cut(s)	101
Hin1I	GRCGYC	1 cut(s)	5
Hin1II	CATG	1 cut(s)	25
Hin6I	GCGC	1 cut(s)	99
HinP1I	GCGC	1 cut(s)	99
HincII	GTYRAC	1 cut(s)	322
HindII	GTYRAC	1 cut(s)	322
HinfI	GANTC	1 cut(s)	218
HpaII	CCGG	5 cut(s)	33, 263, 442, 701, 885
HphI	GGTGA	2 cut(s)	455, 520
Hpy166II	GTNNAC	1 cut(s)	322
Hpy188I	TCNGA	3 cut(s)	403, 427, 868
Hpy188III	TCNNGA	2 cut(s)	307, 745
Hpy8I	GTNNAC	1 cut(s)	322
Hpy99I	CGWCG	3 cut(s)	313, 751, 824
HpyAV	CCTTC	2 cut(s)	262, 503
HpyCH4III	ACNGT	2 cut(s)	332, 695
HpyCH4IV	ACGT	2 cut(s)	5, 749
HpyCH4V	TGCA	4 cut(s)	346, 534, 632, 784
HpyF10VI	GCNNNNNNNGC	9 cut(s)	343, 390, 393, 396, 412, 451, 455, 781, 831
HpyF3I	CTNAG	3 cut(s)	402, 669, 843
HpySE526I	ACGT	2 cut(s)	5, 749
Hsp92I	GRCGYC	1 cut(s)	5
Hsp92II	CATG	1 cut(s)	25
HspAI	GCGC	1 cut(s)	99
KflI	GGGWCCC	2 cut(s)	432, 873
Kzo9I	GATC	9 cut(s)	85, 303, 351, 366, 520, 555, 658, 789, 804
LmnI	GCTCC	2 cut(s)	106, 509
Lsp1109I	GCAGC	3 cut(s)	23, 396, 601
LweI	GCATC	1 cut(s)	38
MaeI	CTAG	3 cut(s)	122, 167, 584
MaeII	ACGT	2 cut(s)	5, 749
MalI	GATC	9 cut(s)	87, 305, 353, 368, 522, 557, 660, 791, 806
MbiI	CCGCTC	3 cut(s)	406, 461, 847
MboI	GATC	9 cut(s)	85, 303, 351, 366, 520, 555, 658, 789, 804
MboII	GAAGA	2 cut(s)	313, 689
MflI	RGATCY	1 cut(s)	366
MhlI	GDGCHC	1 cut(s)	506
MlsI	TGGCCA	1 cut(s)	860
MluCI	AATT	5 cut(s)	57, 106, 115, 524, 675
MluNI	TGGCCA	1 cut(s)	860
MlyI	GAGTC	1 cut(s)	212
MmeI	TCCRAC	1 cut(s)	732
MnlI	CCTC	8 cut(s)	122, 203, 214, 236, 270, 280, 708, 718
Mox20I	TGGCCA	1 cut(s)	860
MscI	TGGCCA	1 cut(s)	860
MseI	TTAA	1 cut(s)	182
Msp20I	TGGCCA	1 cut(s)	860
MspA1I	CMGCKG	1 cut(s)	387
MspI	CCGG	5 cut(s)	33, 263, 442, 701, 885
MspR9I	CCNGG	3 cut(s)	476, 518, 885
Mva1269I	GAATGC	1 cut(s)	634
MvaI	CCWGG	2 cut(s)	476, 518
MvnI	CGCG	2 cut(s)	99, 819
MwoI	GCNNNNNNNGC	9 cut(s)	343, 390, 393, 396, 412, 451, 455, 781, 831
NciI	CCSGG	1 cut(s)	885
NdeII	GATC	9 cut(s)	85, 303, 351, 366, 520, 555, 658, 789, 804
NlaIII	CATG	1 cut(s)	25
NlaIV	GGNNCC	5 cut(s)	433, 434, 505, 874, 875
NspV	TTCGAA	1 cut(s)	626
PaqCI	CACCTGC	1 cut(s)	539
PcsI	WCGNNNNNNNCGW	2 cut(s)	290, 728
PctI	GAATGC	1 cut(s)	634
PleI	GAGTC	1 cut(s)	212
PpsI	GAGTC	1 cut(s)	212
PpuMI	RGGWCCY	2 cut(s)	432, 873
PsiI	TTATAA	1 cut(s)	680
Psp5II	RGGWCCY	2 cut(s)	432, 873
Psp6I	CCWGG	2 cut(s)	474, 516
PspFI	CCCAGC	1 cut(s)	877
PspGI	CCWGG	2 cut(s)	474, 516
PspN4I	GGNNCC	5 cut(s)	433, 434, 505, 874, 875
PspPI	GGNCC	2 cut(s)	432, 873
PspPPI	RGGWCCY	2 cut(s)	432, 873
PsuI	RGATCY	1 cut(s)	366
RsaI	GTAC	2 cut(s)	410, 851
RsaNI	GTAC	2 cut(s)	409, 850
SaqAI	TTAA	1 cut(s)	182
Sau3AI	GATC	9 cut(s)	85, 303, 351, 366, 520, 555, 658, 789, 804
Sau96I	GGNCC	2 cut(s)	432, 873
SchI	GAGTC	1 cut(s)	212
ScrFI	CCNGG	3 cut(s)	476, 518, 885
SduI	GDGCHC	1 cut(s)	506
SfaNI	GCATC	1 cut(s)	38
SfcI	CTRYAG	1 cut(s)	691
SfiI	GGCCNNNNNGGCC	1 cut(s)	831
SfuI	TTCGAA	1 cut(s)	626
SinI	GGWCC	2 cut(s)	432, 873
Sse9I	AATT	5 cut(s)	57, 106, 115, 524, 675
SspMI	CTAG	3 cut(s)	122, 167, 584
StyD4I	CCNGG	3 cut(s)	474, 516, 883
StyI	CCWWGG	1 cut(s)	544
TaaI	ACNGT	2 cut(s)	332, 695
TaiI	ACGT	2 cut(s)	8, 752
TaqI	TCGA	5 cut(s)	84, 216, 626, 792, 807
TasI	AATT	5 cut(s)	57, 106, 115, 524, 675
TauI	GCSGC	7 cut(s)	390, 393, 396, 399, 461, 552, 834
Tru1I	TTAA	1 cut(s)	182
Tru9I	TTAA	1 cut(s)	182
TseI	GCWGC	3 cut(s)	11, 384, 614
TspDTI	ATGAA	2 cut(s)	10, 68
TspGWI	ACGGA	5 cut(s)	299, 326, 496, 658, 737
VpaK11BI	GGWCC	2 cut(s)	432, 873
XagI	CCTNNNNNAGG	1 cut(s)	497
XapI	RAATTY	1 cut(s)	57
XspI	CTAG	3 cut(s)	122, 167, 584
ZraI	GACGTC	1 cut(s)	6

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