Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0004151

Physical Location & Seq

Genomic Coordinates Reverse (-)

65171972 .. 65177180

Gene Structure 5209 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG440800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1023 bp

ATGCAGAGTTTGTACAGTAAAACCTCCTGTAGTTCTGCCCACTCGACATCTTCATTCATTGTTGGATCCTCTTCATGGGATAATTCTGTTGAAACTCACGCTCTGCAGTCATCTATATCGAAAAGTGTAATCTTGAAGATGGGTGTGCCACTACAACATTGTCGTAACACCATGAAATCTGGAATACACCTTCAAAATCAGGATTCATCCTCAACTCAATCCACTGGTCAATCGCGCTCTGAATTTGCTAGTTTGAAAGAAGGTAACCCTTGTGGGCAAGGCGTAGTTTCAGGATATAATGAAACACAGGGGAGGCCTGTTGGGGGCCACAAGAAATCTCTCTCCTCAATCACAAGTCAGGAACTTGTCTTCCCTTCACAACTTGATTTTAGCCATTCCATGGCTCATGTTCCATTCCACTGTGCTGAACCATACTTTGGTGGCTTACTTGCTGCTTATGGGCCACAAGCTATGTTTCATCATCCCCAGATGATGGGGATTTCTCCTGGTCGGGTTCCCTTGCCTCTTGATCTCACAGAAAATGAACCGATTTATGTAAACGCAAAACAGTACCGCGCAATTCTGAGGCGGAGGCAATTTCGTGCCAAGCTTGAAGCTCAAAACAAGCTTACCAAAGTTCGGAAGCCGTATCTTCATGAATCTCGACATGTTCACGCATTAAAGAGGGCTAGGGGATCTGGTGGGCGCTTTCTCAACATGAAAAAGCTCCAAGATTCCAAGCCTAACTTCACAAGCCATAGAGTGGATGCTTCAGGTTCTGCTCAGCTACATTTGACCGGAAATATGTCAGAATCTGATGTTCATGAGGCTGACAACTTTCGAGATGGTGCTTCCACAACCTCTTGCTCCGACGTCACTAGCACCTCTAACAGTGACGACATCTTTCCACGGCAAGATTTCAGGTTCTCTGGCTACCCCTCTCACATTGGCGGGATGCTGCAAGTTTCGCTAGTTGATGTGCGTGGTGGCGGAAACCAGCACCATGTTTCCATCTTCCGGTGA

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

340

Amino Acids

37.32

Weight (kDa)

9.45

Isoelectric Point (pI)

50.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFB_NFYA	PF02045	182 - 237	2.5e-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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Publication-ready

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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)
AatII	GACGTC	1 cut(s)	876
AccB7I	CCANNNNNTGG	4 cut(s)	400, 437, 493, 763
AccII	CGCG	2 cut(s)	235, 576
AciI	CCGC	4 cut(s)	574, 589, 951, 990
AclWI	GGATC	3 cut(s)	60, 73, 703
AcsI	RAATTY	1 cut(s)	242
AcuI	CTGAAG	1 cut(s)	756
AcyI	GRCGYC	1 cut(s)	873
AfaI	GTAC	2 cut(s)	14, 572
AfiI	CCNNNNNNNGG	8 cut(s)	75, 323, 400, 437, 493, 639, 763, 1017
AflIII	ACRYGT	1 cut(s)	667
AgsI	TTSAA	5 cut(s)	92, 136, 194, 256, 614
AjnI	CCWGG	1 cut(s)	505
AjuI	GAANNNNNNNTTGG	4 cut(s)	420, 452, 731, 763
AloI	GAACNNNNNNTCC	2 cut(s)	354, 386
AluBI	AGCT	6 cut(s)	470, 610, 617, 628, 727, 787
AluI	AGCT	6 cut(s)	470, 610, 617, 628, 727, 787
AlwI	GGATC	3 cut(s)	60, 73, 703
AlwNI	CAGNNNCTG	2 cut(s)	779, 815
AoxI	GGCC	3 cut(s)	314, 325, 461
ApeKI	GCWGC	2 cut(s)	452, 958
ApoI	RAATTY	1 cut(s)	242
AspLEI	GCGC	3 cut(s)	237, 578, 708
AspS9I	GGNCC	2 cut(s)	325, 461
BamHI	GGATCC	1 cut(s)	65
BbsI	GAAGAC	1 cut(s)	361
BbvI	GCAGC	2 cut(s)	439, 945
BccI	CCATC	4 cut(s)	133, 487, 839, 1019
BceAI	ACGGC	2 cut(s)	631, 926
BciT130I	CCWGG	1 cut(s)	507
BfaI	CTAG	4 cut(s)	249, 690, 879, 971
BfmI	CTRYAG	2 cut(s)	28, 104
BfoI	RGCGCY	1 cut(s)	709
BisI	GCNGC	2 cut(s)	453, 959
BlpI	GCTNAGC	1 cut(s)	783
BlsI	GCNGC	2 cut(s)	454, 960
Bme1390I	CCNGG	1 cut(s)	507
BmgT120I	GGNCC	2 cut(s)	325, 461
BmiI	GGNNCC	3 cut(s)	67, 326, 516
BmrFI	CCNGG	1 cut(s)	507
BmsI	GCATC	2 cut(s)	757, 945
BpiI	GAAGAC	1 cut(s)	361
Bpu1102I	GCTNAGC	1 cut(s)	783
BsaHI	GRCGYC	1 cut(s)	873
BsaJI	CCNNGG	2 cut(s)	399, 908
BsaWI	WCCGGW	2 cut(s)	797, 1017
Bsc4I	CCNNNNNNNGG	8 cut(s)	75, 323, 400, 437, 493, 639, 763, 1017
Bse1I	ACTGG	1 cut(s)	229
BseBI	CCWGG	1 cut(s)	507
BseDI	CCNNGG	2 cut(s)	399, 908
BseGI	GGATG	4 cut(s)	206, 481, 772, 960
BseLI	CCNNNNNNNGG	8 cut(s)	75, 323, 400, 437, 493, 639, 763, 1017
BseMII	CTCAG	2 cut(s)	575, 797
BseNI	ACTGG	1 cut(s)	229
BseRI	GAGGAG	1 cut(s)	334
BseXI	GCAGC	2 cut(s)	439, 945
Bsh1236I	CGCG	2 cut(s)	235, 576
BshFI	GGCC	3 cut(s)	316, 327, 463
BsiSI	CCGG	2 cut(s)	798, 1018
BslI	CCNNNNNNNGG	8 cut(s)	75, 323, 400, 437, 493, 639, 763, 1017
BsnI	GGCC	3 cut(s)	316, 327, 463
Bsp1407I	TGTACA	1 cut(s)	12
Bsp143I	GATC	3 cut(s)	65, 529, 695
Bsp1720I	GCTNAGC	1 cut(s)	783
Bsp19I	CCATGG	1 cut(s)	399
BspACI	CCGC	4 cut(s)	574, 589, 951, 990
BspANI	GGCC	3 cut(s)	316, 327, 463
BspCNI	CTCAG	2 cut(s)	576, 796
BspFNI	CGCG	2 cut(s)	235, 576
BspHI	TCATGA	2 cut(s)	655, 823
BspLI	GGNNCC	3 cut(s)	67, 326, 516
BspMAI	CTGCAG	1 cut(s)	108
BspPI	GGATC	3 cut(s)	60, 73, 703
BsrGI	TGTACA	1 cut(s)	12
BsrI	ACTGG	1 cut(s)	229
BssECI	CCNNGG	2 cut(s)	399, 908
BssMI	GATC	3 cut(s)	65, 529, 695
BssNI	GRCGYC	1 cut(s)	873
BssT1I	CCWWGG	1 cut(s)	399
Bst2UI	CCWGG	1 cut(s)	507
Bst4CI	ACNGT	4 cut(s)	17, 422, 570, 893
Bst6I	CTCTTC	1 cut(s)	76
BstACI	GRCGYC	1 cut(s)	873
BstAUI	TGTACA	1 cut(s)	12
BstDEI	CTNAG	2 cut(s)	584, 783
BstDSI	CCRYGG	2 cut(s)	399, 908
BstEII	GGTNACC	1 cut(s)	263
BstF5I	GGATG	4 cut(s)	206, 481, 772, 960
BstFNI	CGCG	2 cut(s)	235, 576
BstH2I	RGCGCY	1 cut(s)	709
BstHHI	GCGC	3 cut(s)	237, 578, 708
BstKTI	GATC	3 cut(s)	68, 532, 698
BstMBI	GATC	3 cut(s)	65, 529, 695
BstMWI	GCNNNNNNNGC	1 cut(s)	967
BstNI	CCWGG	1 cut(s)	507
BstNSI	RCATGY	1 cut(s)	671
BstPI	GGTNACC	1 cut(s)	263
BstSCI	CCNGG	1 cut(s)	505
BstSFI	CTRYAG	2 cut(s)	28, 104
BstUI	CGCG	2 cut(s)	235, 576
BstV1I	GCAGC	2 cut(s)	439, 945
BstV2I	GAAGAC	1 cut(s)	361
BstX2I	RGATCY	2 cut(s)	65, 695
BstYI	RGATCY	2 cut(s)	65, 695
BsuRI	GGCC	3 cut(s)	316, 327, 463
BtgI	CCRYGG	2 cut(s)	399, 908
BtsCI	GGATG	4 cut(s)	206, 481, 772, 960
BtsIMutI	CAGTG	3 cut(s)	222, 418, 898
CaiI	CAGNNNCTG	2 cut(s)	779, 815
CciI	TCATGA	2 cut(s)	655, 823
CfoI	GCGC	3 cut(s)	237, 578, 708
Cfr13I	GGNCC	2 cut(s)	325, 461
Csp6I	GTAC	2 cut(s)	13, 571
CviAII	CATG	9 cut(s)	75, 172, 400, 407, 656, 668, 718, 824, 1004
CviQI	GTAC	2 cut(s)	13, 571
DdeI	CTNAG	2 cut(s)	584, 783
DpnI	GATC	3 cut(s)	67, 531, 697
DpnII	GATC	3 cut(s)	65, 529, 695
Eam1104I	CTCTTC	1 cut(s)	76
EarI	CTCTTC	1 cut(s)	76
EciI	GGCGGA	2 cut(s)	604, 1005
Eco130I	CCWWGG	1 cut(s)	399
Eco147I	AGGCCT	1 cut(s)	316
Eco57I	CTGAAG	1 cut(s)	756
Eco91I	GGTNACC	1 cut(s)	263
EcoO65I	GGTNACC	1 cut(s)	263
EcoRII	CCWGG	1 cut(s)	505
EcoT14I	CCWWGG	1 cut(s)	399
ErhI	CCWWGG	1 cut(s)	399
FaeI	CATG	9 cut(s)	78, 175, 403, 410, 659, 671, 721, 827, 1007
FalI	AAGNNNNNCTT	2 cut(s)	731, 763
FatI	CATG	9 cut(s)	74, 171, 399, 406, 655, 667, 717, 823, 1003
FauI	CCCGC	1 cut(s)	944
Fnu4HI	GCNGC	2 cut(s)	453, 959
FokI	GGATG	4 cut(s)	193, 468, 779, 967
Fsp4HI	GCNGC	2 cut(s)	453, 959
FspBI	CTAG	4 cut(s)	249, 690, 879, 971
GlaI	GCGC	3 cut(s)	236, 577, 707
GluI	GCNGC	2 cut(s)	453, 959
HaeII	RGCGCY	1 cut(s)	709
HaeIII	GGCC	3 cut(s)	316, 327, 463
HapII	CCGG	2 cut(s)	798, 1018
HhaI	GCGC	3 cut(s)	237, 578, 708
Hin1I	GRCGYC	1 cut(s)	873
Hin1II	CATG	9 cut(s)	78, 175, 403, 410, 659, 671, 721, 827, 1007
Hin6I	GCGC	3 cut(s)	235, 576, 706
HinP1I	GCGC	3 cut(s)	235, 576, 706
HindIII	AAGCTT	2 cut(s)	608, 626
HinfI	GANTC	4 cut(s)	203, 659, 734, 812
HpaII	CCGG	2 cut(s)	798, 1018
Hpy166II	GTNNAC	2 cut(s)	559, 673
Hpy188I	TCNGA	6 cut(s)	241, 585, 642, 811, 817, 871
Hpy8I	GTNNAC	2 cut(s)	559, 673
Hpy99I	CGWCG	1 cut(s)	875
HpyAV	CCTTC	3 cut(s)	200, 254, 384
HpyCH4III	ACNGT	4 cut(s)	17, 422, 570, 893
HpyCH4IV	ACGT	1 cut(s)	873
HpyCH4V	TGCA	3 cut(s)	4, 106, 961
HpyF10VI	GCNNNNNNNGC	1 cut(s)	967
HpyF3I	CTNAG	2 cut(s)	584, 783
HpySE526I	ACGT	1 cut(s)	873
Hsp92I	GRCGYC	1 cut(s)	873
Hsp92II	CATG	9 cut(s)	78, 175, 403, 410, 659, 671, 721, 827, 1007
HspAI	GCGC	3 cut(s)	235, 576, 706
Kzo9I	GATC	3 cut(s)	65, 529, 695
LmnI	GCTCC	2 cut(s)	732, 872
Lsp1109I	GCAGC	2 cut(s)	439, 945
LweI	GCATC	2 cut(s)	757, 945
MaeI	CTAG	4 cut(s)	249, 690, 879, 971
MaeII	ACGT	1 cut(s)	873
MaeIII	GTNAC	4 cut(s)	164, 263, 874, 893
MalI	GATC	3 cut(s)	67, 531, 697
MboI	GATC	3 cut(s)	65, 529, 695
MboII	GAAGA	6 cut(s)	42, 63, 148, 361, 644, 1006
MflI	RGATCY	2 cut(s)	65, 695
MluCI	AATT	4 cut(s)	82, 242, 579, 596
MmeI	TCCRAC	2 cut(s)	43, 894
MseI	TTAA	1 cut(s)	680
MspI	CCGG	2 cut(s)	798, 1018
MspR9I	CCNGG	1 cut(s)	507
MvaI	CCWGG	1 cut(s)	507
MvnI	CGCG	2 cut(s)	235, 576
MwoI	GCNNNNNNNGC	1 cut(s)	967
NcoI	CCATGG	1 cut(s)	399
NdeII	GATC	3 cut(s)	65, 529, 695
NlaIII	CATG	9 cut(s)	78, 175, 403, 410, 659, 671, 721, 827, 1007
NlaIV	GGNNCC	3 cut(s)	67, 326, 516
NmuCI	GTSAC	2 cut(s)	874, 893
NspI	RCATGY	1 cut(s)	671
PagI	TCATGA	2 cut(s)	655, 823
PceI	AGGCCT	1 cut(s)	316
PciI	ACATGT	1 cut(s)	667
PfeI	GAWTC	4 cut(s)	203, 659, 734, 812
PflMI	CCANNNNNTGG	4 cut(s)	400, 437, 493, 763
PkrI	GCNGC	2 cut(s)	454, 960
PscI	ACATGT	1 cut(s)	667
Psp6I	CCWGG	1 cut(s)	505
PspEI	GGTNACC	1 cut(s)	263
PspGI	CCWGG	1 cut(s)	505
PspN4I	GGNNCC	3 cut(s)	67, 326, 516
PspPI	GGNCC	2 cut(s)	325, 461
PstI	CTGCAG	1 cut(s)	108
PstNI	CAGNNNCTG	2 cut(s)	779, 815
PsuI	RGATCY	2 cut(s)	65, 695
RsaI	GTAC	2 cut(s)	14, 572
RsaNI	GTAC	2 cut(s)	13, 571
SaqAI	TTAA	1 cut(s)	680
SatI	GCNGC	2 cut(s)	453, 959
Sau3AI	GATC	3 cut(s)	65, 529, 695
Sau96I	GGNCC	2 cut(s)	325, 461
ScrFI	CCNGG	1 cut(s)	507
SfaNI	GCATC	2 cut(s)	757, 945
SfcI	CTRYAG	2 cut(s)	28, 104
Sse9I	AATT	4 cut(s)	82, 242, 579, 596
SseBI	AGGCCT	1 cut(s)	316
SsiI	CCGC	4 cut(s)	574, 589, 951, 990
SspMI	CTAG	4 cut(s)	249, 690, 879, 971
StuI	AGGCCT	1 cut(s)	316
StyD4I	CCNGG	1 cut(s)	505
StyI	CCWWGG	1 cut(s)	399
TaaI	ACNGT	4 cut(s)	17, 422, 570, 893
TaiI	ACGT	1 cut(s)	876
TaqI	TCGA	4 cut(s)	44, 119, 664, 841
TasI	AATT	4 cut(s)	82, 242, 579, 596
TatI	WGTACW	1 cut(s)	12
TfiI	GAWTC	4 cut(s)	203, 659, 734, 812
Tru1I	TTAA	1 cut(s)	680
Tru9I	TTAA	1 cut(s)	680
TscAI	CASTG	3 cut(s)	229, 425, 898
TseFI	GTSAC	2 cut(s)	874, 893
TseI	GCWGC	2 cut(s)	452, 958
Tsp45I	GTSAC	2 cut(s)	874, 893
TspRI	CASTG	3 cut(s)	229, 425, 898
Van91I	CCANNNNNTGG	4 cut(s)	400, 437, 493, 763
XapI	RAATTY	1 cut(s)	242
XceI	RCATGY	1 cut(s)	671
XspI	CTAG	4 cut(s)	249, 690, 879, 971
ZraI	GACGTC	1 cut(s)	874

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