Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0000499

Physical Location & Seq

Genomic Coordinates Forward (+)

46650652 .. 46656492

Gene Structure 5841 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000009108

Sequence Viewer

CDS Protein Promoter (2k)

Length: 945 bp

ATGATGGTGACCATTGGTTTGACGATGCTGGGCATCTATGTTTTTGAGAGGGACCGACCCATAGTTGATCCATGTCGTTCATGTCCATCTCCATCTCCATCTCCATCTCATTCCGGCTTGTCTTCTACATATGACTTGCGCATTTCGGAGATCATTCACTTGGCTATGATGATCATGACTACAGTGGGATACGGAGATCTTGCTTTTTTGACTATTTCTGGGAGACTATTCGCCACATTTTGGATTCCCATCTGTGTTCCCTTGTTTGCTGCAGCGACATCGTATCTTGTGGAGGCTATCATCCACTATTCTAGTCAGCGACCTATGATAGATGTTTATATTGCTAGGACTGTCATATTATTATTATTTGGTATGGCATTGCATGGATTATTTATCAGTAATGCGCCGAATGATGTGCCTTCCAACACTGATGGTGCTTTGAAGGGATCTTCTTTGTTTGGAATGTTTGCTCTGAAGGGACATGAATGGGAAACAAGCACGTGTGAGCAACATGAATTCACACCATACTCTACAGGCACACAGATTTCTGGTGGGAAAATGTCTGCACTCCAATTTATGGTTTTGGATTTTATATTGGGTTTTGACATCATATCCATATTCAGATCCACAACACAGTGGGATGTTGACTCGTTAGGGCCCACATGCTATGTGGTAATCATCATATCACTTTTATCTGATGATCTGATGCCTGGTGCCCCTCAATTCTATGGCTTGCATCATGGTAGAATGCCCTTGCCCCTTGAAATGGAAGAGGAGCCTGTTTATATAAATGCCAAGCAGTACCATGGTATTTTGAGACAAAGACAGTCACGTGCTAAGGCCGAGCTTGAAAGGAAGCTTATAAAAGTTAGGAAGCCATATCTTCATGACTCCCGTCACCAGCATGCATTGCGGAGAGAGGGTTTGTGGAGGCCATTTCCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0006355 GO:0007275 GO:0008150 GO:0009555 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0009890 GO:0009892 GO:0010154 GO:0010262 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0045892 GO:0045934 GO:0048229 GO:0048316 GO:0048519 GO:0048523 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0055046 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0140110 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

315

Amino Acids

35.29

Weight (kDa)

6.63

Isoelectric Point (pI)

49.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ion_trans_2	PF07885	50 - 100	2e-10	Ion channel
CBFB_NFYA	PF02045	259 - 307	3.2e-19	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

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Publication-ready

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Orthologous Genes (Group: OG0000499)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G02510
fragaria_vesca	FvH4_6g16970 FvH4_6g16980 FvH4_7g01220 FvH4_7g01220 FvH4_7g01220 FvH4_7g01240
malus_domestica	MD05G1161500.v1.1
pyrus_communis	pycom05g15160
rosa_chinensis	RchiOBHm_Chr1g0316711 RchiOBHm_Chr1g0316801 RchiOBHm_Chr1g0316871 RchiOBHm_Chr1g0316881 RchiOBHm_Chr1g0316951 RchiOBHm_Chr3g0470991 RchiOBHm_Chr4g0402171
rosa_laevigata	RLG00000001679 RLG00000001680 RLG00000007591 RLG00000009108 RLG00000024215 RLG00000024221 RLG00000030636 RLG00000030640 RLG00000030642 RLG00000030648 RLG00000030651 RLG00000030658 RLG00000030667
rosa_multiflora	Rmu_sc0000839.1_g000010 Rmu_sc0002667.1_g000003 Rmu_sc0003008.1_g000023 Rmu_sc0003008.1_g000047 Rmu_sc0005604.1_g000001 Rmu_sc0005939.1_g000001 Rmu_sc0006790.1_g000011 Rmu_sc0007472.1_g000004 Rmu_sc0017515.1_g000001 Rmu_sc0019753.1_g000003 Rmu_sc0020172.1_g000001 Rmu_sc0023783.1_g000001
rosa_roxburghii	Rroxscaffold_4G00330760 Rroxscaffold_4G00330800 Rroxscaffold_4G00330810 Rroxscaffold_4G00330950
rosa_rugosa	Rorug01G0011200 Rorug01G0011500 Rorug01G0011600 Rorug01G0012300 Rorug01G0012300 Rorug01G0012400 Rorug01G0012500 Rorug01G0012600 Rorug01G0012600 Rorug01G0013400 Rorug01G0013400 Rorug01G0013500
rosa_samantha	Rh1AG021100 Rh1AG022800 Rh1AG023300 Rh1AG023500 Rh1AG024000 Rh1AG024300 Rh1BG016000 Rh1BG016300 Rh1BG021300 Rh1BG021500 Rh1CG020300 Rh1CG022500 Rh1DG016300 Rh1DG016400 Rh1DG017300 Rh1DG017400 Rh1DG017700 Rh1DG017800 Rh1DG018200 Rh1DG019100 Rh1DG019900 Rh1DG020200 Rh1DG020800 Rh1DG021300 Rh1DG021400 Rh1DG021800 Rh3DG186400
rosa_wichuraiana	Rw1G001370 Rw1G001480 Rw1G001650 Rw1G001680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	863
Acc16I	TGCGCA	1 cut(s)	140
AccB1I	GGYRCC	1 cut(s)	713
AccB7I	CCANNNNNTGG	2 cut(s)	240, 577
AciI	CCGC	1 cut(s)	913
AclWI	GGATC	3 cut(s)	62, 454, 618
AcsI	RAATTY	1 cut(s)	515
AcuI	CTGAAG	1 cut(s)	494
AcvI	CACGTG	2 cut(s)	501, 833
AfaI	GTAC	1 cut(s)	803
AfiI	CCNNNNNNNGG	3 cut(s)	240, 577, 766
AflIII	ACRYGT	1 cut(s)	500
AgsI	TTSAA	3 cut(s)	442, 764, 851
AjnI	CCWGG	1 cut(s)	709
AluBI	AGCT	2 cut(s)	847, 859
AluI	AGCT	2 cut(s)	847, 859
Alw26I	GTCTC	2 cut(s)	217, 811
AlwI	GGATC	3 cut(s)	62, 454, 618
AoxI	GGCC	3 cut(s)	656, 840, 932
ApaI	GGGCCC	1 cut(s)	660
ApeKI	GCWGC	2 cut(s)	269, 272
ApoI	RAATTY	1 cut(s)	515
ArsI	GACNNNNNNTTYG	1 cut(s)	33
AspLEI	GCGC	2 cut(s)	141, 406
AspS9I	GGNCC	3 cut(s)	52, 656, 657
AsuHPI	GGTGA	2 cut(s)	19, 890
AvaII	GGWCC	1 cut(s)	52
BaeGI	GKGCMC	2 cut(s)	660, 718
BanI	GGYRCC	1 cut(s)	713
BanII	GRGCYC	1 cut(s)	660
BbrPI	CACGTG	2 cut(s)	501, 833
BbsI	GAAGAC	1 cut(s)	114
BbvI	GCAGC	2 cut(s)	256, 284
BccI	CCATC	6 cut(s)	94, 100, 106, 112, 257, 425
BcgI	CGANNNNNNTGC	4 cut(s)	261, 295, 397, 431
BciT130I	CCWGG	1 cut(s)	711
BciVI	GTATCC	1 cut(s)	182
BclI	TGATCA	1 cut(s)	171
BcoDI	GTCTC	2 cut(s)	217, 811
BfaI	CTAG	2 cut(s)	312, 345
BfmI	CTRYAG	3 cut(s)	180, 270, 531
BfuI	GTATCC	1 cut(s)	182
BglII	AGATCT	1 cut(s)	196
BisI	GCNGC	2 cut(s)	270, 273
BlsI	GCNGC	2 cut(s)	271, 274
Bme1390I	CCNGG	1 cut(s)	711
Bme18I	GGWCC	1 cut(s)	52
BmgT120I	GGNCC	3 cut(s)	52, 656, 657
BmiI	GGNNCC	4 cut(s)	53, 658, 715, 777
BmrFI	CCNGG	1 cut(s)	711
BmsI	GCATC	4 cut(s)	15, 42, 696, 745
BoxI	GACNNNNGTC	1 cut(s)	894
BpiI	GAAGAC	1 cut(s)	114
Bpu10I	CCTNAGC	1 cut(s)	837
BsaAI	YACGTR	2 cut(s)	501, 833
BsaBI	GATNNNNATC	1 cut(s)	248
BsaJI	CCNNGG	1 cut(s)	805
BsaXI	ACNNNNNCTCC	2 cut(s)	907, 937
Bsc4I	CCNNNNNNNGG	3 cut(s)	240, 577, 766
Bse3DI	GCAATG	2 cut(s)	377, 908
Bse8I	GATNNNNATC	1 cut(s)	248
BseBI	CCWGG	1 cut(s)	711
BseDI	CCNNGG	1 cut(s)	805
BseGI	GGATG	2 cut(s)	300, 646
BseJI	GATNNNNATC	1 cut(s)	248
BseLI	CCNNNNNNNGG	3 cut(s)	240, 577, 766
BseMI	GCAATG	2 cut(s)	377, 908
BseRI	GAGGAG	1 cut(s)	788
BseSI	GKGCMC	2 cut(s)	660, 718
BseXI	GCAGC	2 cut(s)	256, 284
BseYI	CCCAGC	1 cut(s)	28
BsgI	GTGCAG	1 cut(s)	549
BshFI	GGCC	3 cut(s)	658, 842, 934
BshNI	GGYRCC	1 cut(s)	713
BsiSI	CCGG	1 cut(s)	114
BslFI	GGGAC	2 cut(s)	65, 492
BslI	CCNNNNNNNGG	3 cut(s)	240, 577, 766
BsmAI	GTCTC	2 cut(s)	217, 811
BsmFI	GGGAC	2 cut(s)	65, 492
BsmI	GAATGC	1 cut(s)	753
BsnI	GGCC	3 cut(s)	658, 842, 934
Bsp120I	GGGCCC	1 cut(s)	656
Bsp1286I	GDGCHC	2 cut(s)	660, 718
Bsp143I	GATC	7 cut(s)	67, 150, 171, 196, 446, 623, 700
Bsp19I	CCATGG	1 cut(s)	805
BspACI	CCGC	1 cut(s)	913
BspANI	GGCC	3 cut(s)	658, 842, 934
BspHI	TCATGA	2 cut(s)	174, 886
BspLI	GGNNCC	4 cut(s)	53, 658, 715, 777
BspMAI	CTGCAG	1 cut(s)	274
BspPI	GGATC	3 cut(s)	62, 454, 618
BspT107I	GGYRCC	1 cut(s)	713
BsrDI	GCAATG	2 cut(s)	377, 908
BssECI	CCNNGG	1 cut(s)	805
BssMI	GATC	7 cut(s)	67, 150, 171, 196, 446, 623, 700
BssT1I	CCWWGG	1 cut(s)	805
Bst2UI	CCWGG	1 cut(s)	711
Bst4CI	ACNGT	4 cut(s)	184, 352, 636, 828
Bst6I	CTCTTC	1 cut(s)	765
BstAPI	GCANNNNNTGC	1 cut(s)	910
BstBAI	YACGTR	2 cut(s)	501, 833
BstC8I	GCNNGC	2 cut(s)	734, 906
BstDEI	CTNAG	1 cut(s)	837
BstDSI	CCRYGG	1 cut(s)	805
BstEII	GGTNACC	1 cut(s)	7
BstF5I	GGATG	2 cut(s)	300, 646
BstHHI	GCGC	2 cut(s)	141, 406
BstKTI	GATC	7 cut(s)	70, 153, 174, 199, 449, 626, 703
BstMAI	GTCTC	2 cut(s)	217, 811
BstMBI	GATC	7 cut(s)	67, 150, 171, 196, 446, 623, 700
BstMWI	GCNNNNNNNGC	1 cut(s)	910
BstNI	CCWGG	1 cut(s)	711
BstNSI	RCATGY	2 cut(s)	666, 908
BstPAI	GACNNNNGTC	1 cut(s)	894
BstPI	GGTNACC	1 cut(s)	7
BstSCI	CCNGG	1 cut(s)	709
BstSFI	CTRYAG	3 cut(s)	180, 270, 531
BstSLI	GKGCMC	2 cut(s)	660, 718
BstV1I	GCAGC	2 cut(s)	256, 284
BstV2I	GAAGAC	1 cut(s)	114
BstX2I	RGATCY	3 cut(s)	196, 446, 623
BstYI	RGATCY	3 cut(s)	196, 446, 623
BsuI	GTATCC	1 cut(s)	182
BsuRI	GGCC	3 cut(s)	658, 842, 934
BtgI	CCRYGG	1 cut(s)	805
BtsCI	GGATG	2 cut(s)	300, 646
BtsIMutI	CAGTG	3 cut(s)	189, 426, 641
Cac8I	GCNNGC	2 cut(s)	734, 906
CciI	TCATGA	2 cut(s)	174, 886
CfoI	GCGC	2 cut(s)	141, 406
Cfr13I	GGNCC	3 cut(s)	52, 656, 657
Csp6I	GTAC	1 cut(s)	802
CviQI	GTAC	1 cut(s)	802
DdeI	CTNAG	1 cut(s)	837
DpnI	GATC	7 cut(s)	69, 152, 173, 198, 448, 625, 702
DpnII	GATC	7 cut(s)	67, 150, 171, 196, 446, 623, 700
Eam1104I	CTCTTC	1 cut(s)	765
EarI	CTCTTC	1 cut(s)	765
Eco130I	CCWWGG	1 cut(s)	805
Eco24I	GRGCYC	1 cut(s)	660
Eco47I	GGWCC	1 cut(s)	52
Eco57I	CTGAAG	1 cut(s)	494
Eco72I	CACGTG	2 cut(s)	501, 833
Eco91I	GGTNACC	1 cut(s)	7
EcoO109I	RGGNCCY	1 cut(s)	656
EcoO65I	GGTNACC	1 cut(s)	7
EcoRI	GAATTC	1 cut(s)	515
EcoRII	CCWGG	1 cut(s)	709
EcoT14I	CCWWGG	1 cut(s)	805
EcoT22I	ATGCAT	1 cut(s)	910
EcoT38I	GRGCYC	1 cut(s)	660
ErhI	CCWWGG	1 cut(s)	805
FaqI	GGGAC	2 cut(s)	65, 492
FauNDI	CATATG	1 cut(s)	130
FbaI	TGATCA	1 cut(s)	171
Fnu4HI	GCNGC	2 cut(s)	270, 273
FokI	GGATG	2 cut(s)	287, 653
FriOI	GRGCYC	1 cut(s)	660
Fsp4HI	GCNGC	2 cut(s)	270, 273
FspBI	CTAG	2 cut(s)	312, 345
FspI	TGCGCA	1 cut(s)	140
GlaI	GCGC	2 cut(s)	140, 405
GluI	GCNGC	2 cut(s)	270, 273
GsaI	CCCAGC	1 cut(s)	32
HaeIII	GGCC	3 cut(s)	658, 842, 934
HapII	CCGG	1 cut(s)	114
HhaI	GCGC	2 cut(s)	141, 406
Hin6I	GCGC	2 cut(s)	139, 404
HinP1I	GCGC	2 cut(s)	139, 404
HincII	GTYRAC	1 cut(s)	646
HindII	GTYRAC	1 cut(s)	646
HindIII	AAGCTT	1 cut(s)	857
HinfI	GANTC	3 cut(s)	244, 647, 890
HpaII	CCGG	1 cut(s)	114
HphI	GGTGA	2 cut(s)	19, 890
Hpy166II	GTNNAC	1 cut(s)	646
Hpy188I	TCNGA	5 cut(s)	148, 474, 623, 697, 705
Hpy188III	TCNNGA	2 cut(s)	175, 887
Hpy8I	GTNNAC	1 cut(s)	646
HpyAV	CCTTC	3 cut(s)	429, 436, 469
HpyCH4III	ACNGT	4 cut(s)	184, 352, 636, 828
HpyCH4IV	ACGT	2 cut(s)	500, 832
HpyCH4V	TGCA	5 cut(s)	272, 382, 566, 736, 908
HpyF10VI	GCNNNNNNNGC	1 cut(s)	910
HpyF3I	CTNAG	1 cut(s)	837
HpySE526I	ACGT	2 cut(s)	500, 832
HspAI	GCGC	2 cut(s)	139, 404
Ksp22I	TGATCA	1 cut(s)	171
Kzo9I	GATC	7 cut(s)	67, 150, 171, 196, 446, 623, 700
LmnI	GCTCC	1 cut(s)	775
LpnPI	CCDG	9 cut(s)	14, 127, 204, 519, 534, 696, 723, 792, 914
Lsp1109I	GCAGC	2 cut(s)	256, 284
LweI	GCATC	4 cut(s)	15, 42, 696, 745
MaeI	CTAG	2 cut(s)	312, 345
MaeII	ACGT	2 cut(s)	500, 832
MaeIII	GTNAC	3 cut(s)	7, 828, 896
MalI	GATC	7 cut(s)	69, 152, 173, 198, 448, 625, 702
MboI	GATC	7 cut(s)	67, 150, 171, 196, 446, 623, 700
MboII	GAAGA	4 cut(s)	114, 441, 782, 875
MflI	RGATCY	3 cut(s)	196, 446, 623
MhlI	GDGCHC	2 cut(s)	660, 718
MluCI	AATT	3 cut(s)	515, 572, 722
MlyI	GAGTC	2 cut(s)	641, 884
MmeI	TCCRAC	1 cut(s)	447
MnlI	CCTC	6 cut(s)	42, 286, 729, 766, 913, 924
Mph1103I	ATGCAT	1 cut(s)	910
MseI	TTAA	1 cut(s)	943
MslI	CAYNNNNRTG	1 cut(s)	903
MspI	CCGG	1 cut(s)	114
MspR9I	CCNGG	1 cut(s)	711
Mva1269I	GAATGC	1 cut(s)	753
MvaI	CCWGG	1 cut(s)	711
MwoI	GCNNNNNNNGC	1 cut(s)	910
NcoI	CCATGG	1 cut(s)	805
NdeI	CATATG	1 cut(s)	130
NdeII	GATC	7 cut(s)	67, 150, 171, 196, 446, 623, 700
NlaIV	GGNNCC	4 cut(s)	53, 658, 715, 777
NmeAIII	GCCGAG	1 cut(s)	868
NmuCI	GTSAC	3 cut(s)	7, 828, 896
NsbI	TGCGCA	1 cut(s)	140
NsiI	ATGCAT	1 cut(s)	910
NspI	RCATGY	2 cut(s)	666, 908
PaeI	GCATGC	1 cut(s)	908
PagI	TCATGA	2 cut(s)	174, 886
PctI	GAATGC	1 cut(s)	753
PfeI	GAWTC	1 cut(s)	244
PflMI	CCANNNNNTGG	2 cut(s)	240, 577
PkrI	GCNGC	2 cut(s)	271, 274
PleI	GAGTC	2 cut(s)	641, 884
PmaCI	CACGTG	2 cut(s)	501, 833
PmlI	CACGTG	2 cut(s)	501, 833
PpsI	GAGTC	2 cut(s)	641, 884
Ppu21I	YACGTR	2 cut(s)	501, 833
PshAI	GACNNNNGTC	1 cut(s)	894
PsiI	TTATAA	1 cut(s)	863
Psp6I	CCWGG	1 cut(s)	709
PspCI	CACGTG	2 cut(s)	501, 833
PspEI	GGTNACC	1 cut(s)	7
PspFI	CCCAGC	1 cut(s)	28
PspGI	CCWGG	1 cut(s)	709
PspN4I	GGNNCC	4 cut(s)	53, 658, 715, 777
PspOMI	GGGCCC	1 cut(s)	656
PspPI	GGNCC	3 cut(s)	52, 656, 657
PstI	CTGCAG	1 cut(s)	274
PsuI	RGATCY	3 cut(s)	196, 446, 623
RsaI	GTAC	1 cut(s)	803
RsaNI	GTAC	1 cut(s)	802
RseI	CAYNNNNRTG	1 cut(s)	903
SaqAI	TTAA	1 cut(s)	943
SatI	GCNGC	2 cut(s)	270, 273
Sau3AI	GATC	7 cut(s)	67, 150, 171, 196, 446, 623, 700
Sau96I	GGNCC	3 cut(s)	52, 656, 657
SchI	GAGTC	2 cut(s)	641, 884
ScrFI	CCNGG	1 cut(s)	711
SduI	GDGCHC	2 cut(s)	660, 718
SetI	ASST	5 cut(s)	325, 503, 835, 849, 861
SfaNI	GCATC	4 cut(s)	15, 42, 696, 745
SfcI	CTRYAG	3 cut(s)	180, 270, 531
SinI	GGWCC	1 cut(s)	52
SmiMI	CAYNNNNRTG	1 cut(s)	903
SphI	GCATGC	1 cut(s)	908
Sse9I	AATT	3 cut(s)	515, 572, 722
SsiI	CCGC	1 cut(s)	913
SspMI	CTAG	2 cut(s)	312, 345
StyD4I	CCNGG	1 cut(s)	709
StyI	CCWWGG	1 cut(s)	805
TaaI	ACNGT	4 cut(s)	184, 352, 636, 828
TaiI	ACGT	2 cut(s)	503, 835
TaqII	GACCGA	1 cut(s)	69
TasI	AATT	3 cut(s)	515, 572, 722
TfiI	GAWTC	1 cut(s)	244
Tru1I	TTAA	1 cut(s)	943
Tru9I	TTAA	1 cut(s)	943
TscAI	CASTG	3 cut(s)	189, 433, 641
TseFI	GTSAC	3 cut(s)	7, 828, 896
TseI	GCWGC	2 cut(s)	269, 272
Tsp45I	GTSAC	3 cut(s)	7, 828, 896
TspDTI	ATGAA	4 cut(s)	69, 498, 528, 875
TspGWI	ACGGA	1 cut(s)	207
TspRI	CASTG	3 cut(s)	189, 433, 641
Van91I	CCANNNNNTGG	2 cut(s)	240, 577
VpaK11BI	GGWCC	1 cut(s)	52
XapI	RAATTY	1 cut(s)	515
XceI	RCATGY	2 cut(s)	666, 908
XcmI	CCANNNNNNNNNTGG	1 cut(s)	667
XspI	CTAG	2 cut(s)	312, 345
Zsp2I	ATGCAT	1 cut(s)	910

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