Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0004151

Physical Location & Seq

Genomic Coordinates Reverse (-)

61026546 .. 61029666

Gene Structure 3121 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000020102

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1116 bp

ATGGCTCTTGCTAAGCTCTTCTATACTTATTTGGACTTACTTGGACACCTGGTTGCTGATTGGTGGACAATTCAAGTAAAAGTTCAGACTATGCAGAGTTTGTATAGTAAAAACTCGGGTATTAGTTCTGCCCACTCGACATCTTCATTCATTGTTGGATCCTCTTCATGGGAGAATTCTGCTGAAACTCATGCTGTTCAGTCATCTATATCGAAAAGTGTATTCTTGAAGATGGGTGTGACACTACAACATTGTCGTAACACCACGAAATCTGGAATACGCCTTCAAGATCAGGATTCATCCTCAACTCAATCCACTGGTCAATTGTTCTCTGAATTGGCTAGTTTGAAAGAACGCAACCCTTGTGGGCAAGGCGTAGTTTCAGAATATAATGAAACACAGGGGAGGTCTGTTGGGGGCCACAAGAAATCTCTCTCCTCAATCACAAGTCAGGAACTTGTCTTCCCTTCACAACTTGATTTTAGCCATTCCATGGCTCATGTTCCATTCCACTGTGCTGAACCATACTTTGGTGGCTTACTTGCTGCTTGTGGGCCACAAGCTATGTATCATCATCCCCAGATGATAGGGATTTCTCCTGCTCGGGTACCCTTGCCTCTTGATCTCACAGAAGATGAACCGATTTATGTAAACCCAAAACAATACCGTGCAATTCTGAGGCGGAGGCAATTTCGTGCCAAGCTTGAAGCTCAAAACAAGCTCACCAAAGTTCGGAAGCCGTATCTTCATGAATCTCGACATGTTCATGCATTAAAGAGGGCTAGGGGATCTGGTGGGCGCTTTCTTAACATGAAAAAGCTCCAAGATTCCAAGCCTAACTCCACAAGCCATAGAGTGGATGCTTCAGGTTCTGCTCAACTACATTTGACCAGAAATATGTCAGAATCTGATGTTCATGAGGCTGACAACTATCAAGATGGTGCTTCGACAACCTCTTGCTCCGACATTACTAGCACCTCCAACAGTGACAACATCTTTCCGCGGCAAGATTTCAGGTTCTCTGGCTACCCCTCTCACATTGGTGGGATGCTGCAAGTTCCTCTAGTTGATGAGCGTGGTGGCAGAAACCAGCACCATGTTTCCATCTTCGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003700 GO:0006355 GO:0006950 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0009314 GO:0009414 GO:0009415 GO:0009416 GO:0009628 GO:0009637 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009755 GO:0009785 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010033 GO:0010035 GO:0010154 GO:0010262 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0022414 GO:0023052 GO:0030522 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0032870 GO:0033993 GO:0042221 GO:0045892 GO:0045934 GO:0048316 GO:0048519 GO:0048523 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051716 GO:0060255 GO:0061458 GO:0065007 GO:0070887 GO:0071214 GO:0071215 GO:0071229 GO:0071310 GO:0071396 GO:0071478 GO:0071482 GO:0071483 GO:0071495 GO:0080090 GO:0097305 GO:0097306 GO:0104004 GO:0140110 GO:1901700 GO:1901701 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 map04612 map05152

Pfam Domains

Protein Families

CBFB_NFYA

Protein Analysis

372

Amino Acids

41.12

Weight (kDa)

9.2

Isoelectric Point (pI)

49.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFB_NFYA	PF02045	213 - 268	2.3e-26	CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B

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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Orthologous Genes (Group: OG0004151)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G17590 AT1G17590 AT1G17590 AT1G17590 AT1G72830 AT1G72830 AT1G72830
fragaria_vesca	FvH4_6g34360 FvH4_6g34360 FvH4_6g34360
malus_domestica	MD09G1186200.v1.1
prunus_persica	Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1
pyrus_communis	pycom09g10340
rosa_chinensis	RchiOBHm_Chr2g0144701
rosa_laevigata	RLG00000020102
rosa_multiflora	Rmu_co8510597.1_g000001 Rmu_sc0000227.1_g000003 Rmu_sc0037791.1_g000001
rosa_roxburghii	Rroxscaffold_2G00101060
rosa_rugosa	Rorug02G0388800 Rorug02G0388900 Rorug02G0389000
rosa_samantha	Rh2AG440800 Rh2BG451200 Rh2CG428000 Rh2DG461200
rosa_wichuraiana	Rw2G036060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	607
AccB1I	GGYRCC	1 cut(s)	607
AccB7I	CCANNNNNTGG	3 cut(s)	493, 530, 856
AccII	CGCG	1 cut(s)	1003
AciI	CCGC	3 cut(s)	682, 1001, 1003
AclWI	GGATC	3 cut(s)	153, 166, 796
AcsI	RAATTY	1 cut(s)	175
AcuI	CTGAAG	1 cut(s)	849
AfaI	GTAC	1 cut(s)	609
AfiI	CCNNNNNNNGG	5 cut(s)	168, 493, 530, 732, 856
AflIII	ACRYGT	1 cut(s)	760
AgsI	TTSAA	5 cut(s)	74, 229, 287, 349, 707
AjnI	CCWGG	1 cut(s)	48
AjuI	GAANNNNNNNTTGG	2 cut(s)	513, 545
AleI	CACNNNNGTG	1 cut(s)	1041
AloI	GAACNNNNNNTCC	2 cut(s)	447, 479
AluBI	AGCT	6 cut(s)	16, 563, 703, 710, 721, 820
AluI	AGCT	6 cut(s)	16, 563, 703, 710, 721, 820
AlwI	GGATC	3 cut(s)	153, 166, 796
AlwNI	CAGNNNCTG	2 cut(s)	872, 908
Ama87I	CYCGRG	2 cut(s)	115, 603
AoxI	GGCC	2 cut(s)	418, 554
ApeKI	GCWGC	2 cut(s)	545, 1051
ApoI	RAATTY	1 cut(s)	175
Asp718I	GGTACC	1 cut(s)	607
AspLEI	GCGC	1 cut(s)	801
AspS9I	GGNCC	2 cut(s)	418, 554
AsuHPI	GGTGA	1 cut(s)	715
AvaI	CYCGRG	2 cut(s)	115, 603
BamHI	GGATCC	1 cut(s)	158
BanI	GGYRCC	1 cut(s)	607
BbsI	GAAGAC	1 cut(s)	454
BbvI	GCAGC	2 cut(s)	532, 1038
BccI	CCATC	3 cut(s)	226, 932, 1112
BceAI	ACGGC	1 cut(s)	724
BciT130I	CCWGG	1 cut(s)	50
BfaI	CTAG	4 cut(s)	342, 783, 972, 1064
BfoI	RGCGCY	1 cut(s)	802
BisI	GCNGC	3 cut(s)	546, 1004, 1052
BlpI	GCTNAGC	1 cut(s)	12
BlsI	GCNGC	3 cut(s)	547, 1005, 1053
Bme1390I	CCNGG	1 cut(s)	50
BmeT110I	CYCGRG	2 cut(s)	115, 603
BmgT120I	GGNCC	2 cut(s)	418, 554
BmiI	GGNNCC	3 cut(s)	160, 419, 609
BmrFI	CCNGG	1 cut(s)	50
BmsI	GCATC	2 cut(s)	850, 1038
BpiI	GAAGAC	1 cut(s)	454
Bpu1102I	GCTNAGC	1 cut(s)	12
BsaJI	CCNNGG	2 cut(s)	492, 1001
Bsc4I	CCNNNNNNNGG	5 cut(s)	168, 493, 530, 732, 856
Bse1I	ACTGG	1 cut(s)	322
BseBI	CCWGG	1 cut(s)	50
BseDI	CCNNGG	2 cut(s)	492, 1001
BseGI	GGATG	4 cut(s)	299, 574, 865, 1053
BseLI	CCNNNNNNNGG	5 cut(s)	168, 493, 530, 732, 856
BseMII	CTCAG	1 cut(s)	668
BseNI	ACTGG	1 cut(s)	322
BseRI	GAGGAG	1 cut(s)	427
BseXI	GCAGC	2 cut(s)	532, 1038
Bsh1236I	CGCG	1 cut(s)	1003
BshFI	GGCC	2 cut(s)	420, 556
BshNI	GGYRCC	1 cut(s)	607
BsiHKCI	CYCGRG	2 cut(s)	115, 603
BslI	CCNNNNNNNGG	5 cut(s)	168, 493, 530, 732, 856
BsnI	GGCC	2 cut(s)	420, 556
BsoBI	CYCGRG	2 cut(s)	115, 603
Bsp143I	GATC	4 cut(s)	158, 289, 622, 788
Bsp1720I	GCTNAGC	1 cut(s)	12
Bsp19I	CCATGG	1 cut(s)	492
BspACI	CCGC	3 cut(s)	682, 1001, 1003
BspANI	GGCC	2 cut(s)	420, 556
BspCNI	CTCAG	1 cut(s)	669
BspFNI	CGCG	1 cut(s)	1003
BspHI	TCATGA	2 cut(s)	748, 916
BspLI	GGNNCC	3 cut(s)	160, 419, 609
BspPI	GGATC	3 cut(s)	153, 166, 796
BspQI	GCTCTTC	1 cut(s)	23
BspT107I	GGYRCC	1 cut(s)	607
BsrI	ACTGG	1 cut(s)	322
BssECI	CCNNGG	2 cut(s)	492, 1001
BssMI	GATC	4 cut(s)	158, 289, 622, 788
BssT1I	CCWWGG	1 cut(s)	492
Bst2UI	CCWGG	1 cut(s)	50
Bst4CI	ACNGT	3 cut(s)	515, 668, 986
Bst6I	CTCTTC	2 cut(s)	23, 169
BstDEI	CTNAG	2 cut(s)	12, 677
BstDSI	CCRYGG	2 cut(s)	492, 1001
BstF5I	GGATG	4 cut(s)	299, 574, 865, 1053
BstFNI	CGCG	1 cut(s)	1003
BstH2I	RGCGCY	1 cut(s)	802
BstHHI	GCGC	1 cut(s)	801
BstKTI	GATC	4 cut(s)	161, 292, 625, 791
BstMBI	GATC	4 cut(s)	158, 289, 622, 788
BstNI	CCWGG	1 cut(s)	50
BstNSI	RCATGY	1 cut(s)	764
BstSCI	CCNGG	1 cut(s)	48
BstUI	CGCG	1 cut(s)	1003
BstV1I	GCAGC	2 cut(s)	532, 1038
BstV2I	GAAGAC	1 cut(s)	454
BstX2I	RGATCY	2 cut(s)	158, 788
BstYI	RGATCY	2 cut(s)	158, 788
BsuRI	GGCC	2 cut(s)	420, 556
BtgI	CCRYGG	2 cut(s)	492, 1001
BtsCI	GGATG	4 cut(s)	299, 574, 865, 1053
BtsIMutI	CAGTG	3 cut(s)	315, 511, 991
CaiI	CAGNNNCTG	2 cut(s)	872, 908
CciI	TCATGA	2 cut(s)	748, 916
CfoI	GCGC	1 cut(s)	801
Cfr13I	GGNCC	2 cut(s)	418, 554
Cfr42I	CCGCGG	1 cut(s)	1004
CsiI	ACCWGGT	1 cut(s)	48
Csp6I	GTAC	1 cut(s)	608
CspCI	CAANNNNNGTGG	2 cut(s)	346, 381
CviQI	GTAC	1 cut(s)	608
DdeI	CTNAG	2 cut(s)	12, 677
DpnI	GATC	4 cut(s)	160, 291, 624, 790
DpnII	GATC	4 cut(s)	158, 289, 622, 788
Eam1104I	CTCTTC	2 cut(s)	23, 169
EarI	CTCTTC	2 cut(s)	23, 169
EciI	GGCGGA	1 cut(s)	697
Eco130I	CCWWGG	1 cut(s)	492
Eco57I	CTGAAG	1 cut(s)	849
Eco88I	CYCGRG	2 cut(s)	115, 603
EcoRI	GAATTC	1 cut(s)	175
EcoRII	CCWGG	1 cut(s)	48
EcoT14I	CCWWGG	1 cut(s)	492
EcoT22I	ATGCAT	1 cut(s)	772
ErhI	CCWWGG	1 cut(s)	492
Fnu4HI	GCNGC	3 cut(s)	546, 1004, 1052
FokI	GGATG	4 cut(s)	286, 561, 872, 1060
Fsp4HI	GCNGC	3 cut(s)	546, 1004, 1052
FspBI	CTAG	4 cut(s)	342, 783, 972, 1064
GlaI	GCGC	1 cut(s)	800
GluI	GCNGC	3 cut(s)	546, 1004, 1052
HaeII	RGCGCY	1 cut(s)	802
HaeIII	GGCC	2 cut(s)	420, 556
HhaI	GCGC	1 cut(s)	801
Hin6I	GCGC	1 cut(s)	799
HinP1I	GCGC	1 cut(s)	799
HindIII	AAGCTT	1 cut(s)	701
HinfI	GANTC	4 cut(s)	296, 752, 827, 905
HphI	GGTGA	1 cut(s)	715
Hpy166II	GTNNAC	2 cut(s)	66, 652
Hpy188I	TCNGA	9 cut(s)	87, 334, 385, 678, 735, 904, 910, 964, 1112
Hpy8I	GTNNAC	2 cut(s)	66, 652
HpyAV	CCTTC	2 cut(s)	293, 477
HpyCH4III	ACNGT	3 cut(s)	515, 668, 986
HpyCH4V	TGCA	4 cut(s)	94, 671, 770, 1054
HpyF3I	CTNAG	2 cut(s)	12, 677
HspAI	GCGC	1 cut(s)	799
KpnI	GGTACC	1 cut(s)	611
KspI	CCGCGG	1 cut(s)	1004
Kzo9I	GATC	4 cut(s)	158, 289, 622, 788
LguI	GCTCTTC	1 cut(s)	23
LmnI	GCTCC	2 cut(s)	825, 965
Lsp1109I	GCAGC	2 cut(s)	532, 1038
LweI	GCATC	2 cut(s)	850, 1038
MabI	ACCWGGT	1 cut(s)	48
MaeI	CTAG	4 cut(s)	342, 783, 972, 1064
MaeIII	GTNAC	3 cut(s)	238, 257, 986
MalI	GATC	4 cut(s)	160, 291, 624, 790
MboI	GATC	4 cut(s)	158, 289, 622, 788
MboII	GAAGA	8 cut(s)	10, 135, 156, 241, 454, 644, 737, 1099
MfeI	CAATTG	1 cut(s)	323
MflI	RGATCY	2 cut(s)	158, 788
MluCI	AATT	6 cut(s)	69, 175, 323, 335, 672, 689
MmeI	TCCRAC	3 cut(s)	136, 987, 1005
Mph1103I	ATGCAT	1 cut(s)	772
MseI	TTAA	2 cut(s)	773, 807
MslI	CAYNNNNRTG	2 cut(s)	765, 1041
MspA1I	CMGCKG	1 cut(s)	1003
MspR9I	CCNGG	1 cut(s)	50
MunI	CAATTG	1 cut(s)	323
MvaI	CCWGG	1 cut(s)	50
MvnI	CGCG	1 cut(s)	1003
NcoI	CCATGG	1 cut(s)	492
NdeII	GATC	4 cut(s)	158, 289, 622, 788
NlaIV	GGNNCC	3 cut(s)	160, 419, 609
NmuCI	GTSAC	2 cut(s)	238, 986
NsiI	ATGCAT	1 cut(s)	772
NspI	RCATGY	1 cut(s)	764
OliI	CACNNNNGTG	1 cut(s)	1041
PagI	TCATGA	2 cut(s)	748, 916
PciI	ACATGT	1 cut(s)	760
PciSI	GCTCTTC	1 cut(s)	23
PfeI	GAWTC	4 cut(s)	296, 752, 827, 905
PflMI	CCANNNNNTGG	3 cut(s)	493, 530, 856
PkrI	GCNGC	3 cut(s)	547, 1005, 1053
PscI	ACATGT	1 cut(s)	760
Psp6I	CCWGG	1 cut(s)	48
PspGI	CCWGG	1 cut(s)	48
PspN4I	GGNNCC	3 cut(s)	160, 419, 609
PspPI	GGNCC	2 cut(s)	418, 554
PstNI	CAGNNNCTG	2 cut(s)	872, 908
PsuI	RGATCY	2 cut(s)	158, 788
RsaI	GTAC	1 cut(s)	609
RsaNI	GTAC	1 cut(s)	608
RseI	CAYNNNNRTG	2 cut(s)	765, 1041
SacII	CCGCGG	1 cut(s)	1004
SapI	GCTCTTC	1 cut(s)	23
SaqAI	TTAA	2 cut(s)	773, 807
SatI	GCNGC	3 cut(s)	546, 1004, 1052
Sau3AI	GATC	4 cut(s)	158, 289, 622, 788
Sau96I	GGNCC	2 cut(s)	418, 554
ScrFI	CCNGG	1 cut(s)	50
SexAI	ACCWGGT	1 cut(s)	48
SfaNI	GCATC	2 cut(s)	850, 1038
Sfr303I	CCGCGG	1 cut(s)	1004
SgrBI	CCGCGG	1 cut(s)	1004
SmiMI	CAYNNNNRTG	2 cut(s)	765, 1041
Sse9I	AATT	6 cut(s)	69, 175, 323, 335, 672, 689
SsiI	CCGC	3 cut(s)	682, 1001, 1003
SspMI	CTAG	4 cut(s)	342, 783, 972, 1064
StyD4I	CCNGG	1 cut(s)	48
StyI	CCWWGG	1 cut(s)	492
TaaI	ACNGT	3 cut(s)	515, 668, 986
TaqI	TCGA	4 cut(s)	137, 212, 757, 947
TasI	AATT	6 cut(s)	69, 175, 323, 335, 672, 689
TauI	GCSGC	1 cut(s)	1006
TfiI	GAWTC	4 cut(s)	296, 752, 827, 905
Tru1I	TTAA	2 cut(s)	773, 807
Tru9I	TTAA	2 cut(s)	773, 807
TscAI	CASTG	3 cut(s)	322, 518, 991
TseFI	GTSAC	2 cut(s)	238, 986
TseI	GCWGC	2 cut(s)	545, 1051
Tsp45I	GTSAC	2 cut(s)	238, 986
TspRI	CASTG	3 cut(s)	322, 518, 991
Van91I	CCANNNNNTGG	3 cut(s)	493, 530, 856
XapI	RAATTY	1 cut(s)	175
XceI	RCATGY	1 cut(s)	764
XspI	CTAG	4 cut(s)	342, 783, 972, 1064
Zsp2I	ATGCAT	1 cut(s)	772

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