Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0008093

Physical Location & Seq

Genomic Coordinates Forward (+)

19098789 .. 19101759

Gene Structure 2971 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG172900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 828 bp

ATGGATCACTCGGAACAAACACAACAGCAGCAGCAACAACAACAGCAGCCTGTGGTTGGTGTTGTGGCCGGTTCTGGTCAGATGTCTTATGCTCCTCCGTCCTATCAAACTGCTCCGATGGTGGCTTCTGGACCTCCTGCTGTGGCCATCCCTTCCCCAACACAGCCACCCCCGACATTCTCTAATTCCCCACATCAGATAGCCTACCAGCAAGCCCAGCACTTCCACAGCCAACAGCAGCAGCAGCAACAACAGCAGCTTCAGGTGTTCTGGGGCAACCAAATGCAAGACATTGAGCAAACAACTGACTTCAAGAATCACAGCCTTCCACTTGCTAGAATTAAGAAAATCATGAAAGCTGATGAGGATGTCCGAATGATATCAGCTGAGGCTCCAGTGATATTTGCAAAGGCATGTGAAATATTCATCTTGGAGCTGACTTTGCGCTCATGGATTCACACAGAAGAGAACAAGAGGAGAACATTACAAAAGAATGATATTGCAGCTGCTATTTCAAGGACGGATGTGTTCGATTTTCTGGTTGATATTATCCCAAGAGATGAGTTGAAAGAGGAGGGACTTGGAGTGACCAAGGCCAACATCCCTGTGGTGGGTTCTGCGGCAGATGTTCCATACTACTATGTTCCACCACAGCATCCTGTTGGTGCTCCTGGGATGATTGTGGGGAAGCCAGTGGATCAAGCAACAATGTATGGTGCTCAACAGCCTCGGCCACCTATGGCTTTCATGCCCTGGGCTCAGTCCCAACCTCAACAGCCGCTGCCACAGCAGCAACAACAAACCCAACAGCAGCAGACAGACAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0005737 GO:0006355 GO:0008150 GO:0009889 GO:0009891 GO:0009893 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016602 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044798 GO:0045893 GO:0045935 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0080090 GO:0090575 GO:0140110 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 map04612 map05152

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

275

Amino Acids

30.75

Weight (kDa)

5.6

Isoelectric Point (pI)

73.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	100 - 171	9.7e-18	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	108 - 171	5.5e-16	Histone-like transcription factor (CBF/NF-Y) and archaeal histone

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)

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Publication-ready

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Orthologous Genes (Group: OG0008093)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G56170 AT1G56170
fragaria_vesca	FvH4_3g14690 FvH4_3g14690 FvH4_3g14690
malus_domestica	MD05G1229600.v1.1 MD10G1208800.v1.1
prunus_persica	Prupe.4G132200_v2.0.a1
pyrus_communis	pycom05g21060 pycom10g17760
rosa_chinensis	RchiOBHm_Chr5g0024181
rosa_laevigata	RLG00000032777
rosa_multiflora	Rmu_co8304163.1_g000001 Rmu_sc0004033.1_g000008 Rmu_sc0039918.1_g000001
rosa_roxburghii	Rroxscaffold_1G00055060 Rroxscaffold_1G00055710
rosa_rugosa	Rorug05G0082300 Rorug05G0082400
rosa_samantha	Rh5AG172900 Rh5BG169500 Rh5CG185400 Rh5DG171900
rosa_wichuraiana	Rw5G015600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	620, 779
AclWI	GGATC	2 cut(s)	12, 705
AcoI	YGGCCR	3 cut(s)	66, 144, 731
AcuI	CTGAAG	1 cut(s)	245
AfiI	CCNNNNNNNGG	3 cut(s)	56, 610, 611
AgsI	TTSAA	3 cut(s)	313, 516, 568
AjnI	CCWGG	2 cut(s)	670, 752
AluBI	AGCT	5 cut(s)	259, 359, 386, 436, 506
AluI	AGCT	5 cut(s)	259, 359, 386, 436, 506
Alw21I	GWGCWC	2 cut(s)	670, 721
AlwI	GGATC	2 cut(s)	12, 705
AlwNI	CAGNNNCTG	1 cut(s)	781
AoxI	GGCC	4 cut(s)	66, 144, 594, 731
AspLEI	GCGC	1 cut(s)	447
AspS9I	GGNCC	1 cut(s)	131
AvaII	GGWCC	1 cut(s)	131
BalI	TGGCCA	1 cut(s)	146
BanII	GRGCYC	1 cut(s)	760
Bbv12I	GWGCWC	2 cut(s)	670, 721
BbvCI	CCTCAGC	1 cut(s)	387
BccI	CCATC	2 cut(s)	112, 155
BciT130I	CCWGG	2 cut(s)	672, 754
BfaI	CTAG	1 cut(s)	336
Bme1390I	CCNGG	2 cut(s)	672, 754
Bme18I	GGWCC	1 cut(s)	131
BmgT120I	GGNCC	1 cut(s)	131
BmiI	GGNNCC	1 cut(s)	393
BmrFI	CCNGG	2 cut(s)	672, 754
BmsI	GCATC	1 cut(s)	664
BpmI	CTGGAG	1 cut(s)	378
Bpu10I	CCTNAGC	1 cut(s)	387
BsaJI	CCNNGG	5 cut(s)	591, 671, 728, 752, 753
Bsc4I	CCNNNNNNNGG	3 cut(s)	56, 610, 611
Bse118I	RCCGGY	1 cut(s)	68
Bse1I	ACTGG	2 cut(s)	395, 692
BseBI	CCWGG	2 cut(s)	672, 754
BseDI	CCNNGG	5 cut(s)	591, 671, 728, 752, 753
BseGI	GGATG	6 cut(s)	147, 373, 529, 600, 655, 681
BseLI	CCNNNNNNNGG	3 cut(s)	56, 610, 611
BseMII	CTCAG	2 cut(s)	378, 773
BseNI	ACTGG	2 cut(s)	395, 692
BseRI	GAGGAG	3 cut(s)	84, 490, 587
BseYI	CCCAGC	1 cut(s)	216
BshFI	GGCC	4 cut(s)	68, 146, 596, 733
BsiHKAI	GWGCWC	2 cut(s)	670, 721
BsiSI	CCGG	1 cut(s)	69
BslFI	GGGAC	2 cut(s)	591, 748
BslI	CCNNNNNNNGG	3 cut(s)	56, 610, 611
BsmFI	GGGAC	2 cut(s)	591, 748
BsnI	GGCC	4 cut(s)	68, 146, 596, 733
Bsp1286I	GDGCHC	3 cut(s)	670, 721, 760
Bsp143I	GATC	2 cut(s)	4, 697
BspACI	CCGC	2 cut(s)	620, 779
BspANI	GGCC	4 cut(s)	68, 146, 596, 733
BspCNI	CTCAG	2 cut(s)	379, 772
BspHI	TCATGA	1 cut(s)	351
BspLI	GGNNCC	1 cut(s)	393
BspPI	GGATC	2 cut(s)	12, 705
BsrFI	RCCGGY	1 cut(s)	68
BsrI	ACTGG	2 cut(s)	395, 692
BssAI	RCCGGY	1 cut(s)	68
BssECI	CCNNGG	5 cut(s)	591, 671, 728, 752, 753
BssMI	GATC	2 cut(s)	4, 697
BssT1I	CCWWGG	1 cut(s)	591
Bst2UI	CCWGG	2 cut(s)	672, 754
Bst6I	CTCTTC	1 cut(s)	459
BstC8I	GCNNGC	1 cut(s)	213
BstDEI	CTNAG	2 cut(s)	387, 759
BstF5I	GGATG	6 cut(s)	147, 373, 529, 600, 655, 681
BstHHI	GCGC	1 cut(s)	447
BstKTI	GATC	2 cut(s)	7, 700
BstMBI	GATC	2 cut(s)	4, 697
BstMWI	GCNNNNNNNGC	6 cut(s)	217, 244, 253, 442, 787, 790
BstNI	CCWGG	2 cut(s)	672, 754
BstNSI	RCATGY	1 cut(s)	417
BstSCI	CCNGG	2 cut(s)	670, 752
BsuRI	GGCC	4 cut(s)	68, 146, 596, 733
BtsCI	GGATG	6 cut(s)	147, 373, 529, 600, 655, 681
BtsIMutI	CAGTG	2 cut(s)	402, 699
Cac8I	GCNNGC	1 cut(s)	213
CaiI	CAGNNNCTG	1 cut(s)	781
CciI	TCATGA	1 cut(s)	351
CfoI	GCGC	1 cut(s)	447
Cfr10I	RCCGGY	1 cut(s)	68
Cfr13I	GGNCC	1 cut(s)	131
CviAII	CATG	4 cut(s)	352, 414, 450, 748
DdeI	CTNAG	2 cut(s)	387, 759
DpnI	GATC	2 cut(s)	6, 699
DpnII	GATC	2 cut(s)	4, 697
EaeI	YGGCCR	3 cut(s)	66, 144, 731
Eam1104I	CTCTTC	1 cut(s)	459
EarI	CTCTTC	1 cut(s)	459
Eco130I	CCWWGG	1 cut(s)	591
Eco24I	GRGCYC	1 cut(s)	760
Eco32I	GATATC	1 cut(s)	381
Eco47I	GGWCC	1 cut(s)	131
Eco57I	CTGAAG	1 cut(s)	245
EcoRII	CCWGG	2 cut(s)	670, 752
EcoRV	GATATC	1 cut(s)	381
EcoT14I	CCWWGG	1 cut(s)	591
EcoT38I	GRGCYC	1 cut(s)	760
ErhI	CCWWGG	1 cut(s)	591
FaeI	CATG	4 cut(s)	355, 417, 453, 751
FaiI	YATR	9 cut(s)	90, 353, 415, 451, 634, 642, 714, 740, 749
FaqI	GGGAC	2 cut(s)	591, 748
FatI	CATG	4 cut(s)	351, 413, 449, 747
FokI	GGATG	6 cut(s)	134, 380, 536, 587, 642, 688
FriOI	GRGCYC	1 cut(s)	760
FspBI	CTAG	1 cut(s)	336
GlaI	GCGC	1 cut(s)	446
GsaI	CCCAGC	1 cut(s)	220
GsuI	CTGGAG	1 cut(s)	378
HaeIII	GGCC	4 cut(s)	68, 146, 596, 733
HapII	CCGG	1 cut(s)	69
HhaI	GCGC	1 cut(s)	447
Hin1II	CATG	4 cut(s)	355, 417, 453, 751
Hin6I	GCGC	1 cut(s)	445
HinP1I	GCGC	1 cut(s)	445
HinfI	GANTC	2 cut(s)	316, 454
HpaII	CCGG	1 cut(s)	69
Hpy188I	TCNGA	5 cut(s)	13, 81, 117, 198, 374
Hpy188III	TCNNGA	3 cut(s)	129, 313, 352
HpyAV	CCTTC	2 cut(s)	162, 335
HpyCH4V	TGCA	3 cut(s)	286, 407, 503
HpyF10VI	GCNNNNNNNGC	6 cut(s)	217, 244, 253, 442, 787, 790
HpyF3I	CTNAG	2 cut(s)	387, 759
Hsp92II	CATG	4 cut(s)	355, 417, 453, 751
HspAI	GCGC	1 cut(s)	445
Kzo9I	GATC	2 cut(s)	4, 697
LmnI	GCTCC	5 cut(s)	97, 118, 397, 433, 673
LweI	GCATC	1 cut(s)	664
MaeI	CTAG	1 cut(s)	336
MaeIII	GTNAC	1 cut(s)	586
MalI	GATC	2 cut(s)	6, 699
MboI	GATC	2 cut(s)	4, 697
MboII	GAAGA	1 cut(s)	476
MhlI	GDGCHC	3 cut(s)	670, 721, 760
MlsI	TGGCCA	1 cut(s)	146
MluCI	AATT	3 cut(s)	184, 339, 823
MluNI	TGGCCA	1 cut(s)	146
MnlI	CCTC	9 cut(s)	105, 144, 358, 382, 468, 565, 568, 738, 780
Mox20I	TGGCCA	1 cut(s)	146
MscI	TGGCCA	1 cut(s)	146
MseI	TTAA	1 cut(s)	342
MslI	CAYNNNNRTG	1 cut(s)	605
Msp20I	TGGCCA	1 cut(s)	146
MspA1I	CMGCKG	3 cut(s)	386, 506, 781
MspI	CCGG	1 cut(s)	69
MspR9I	CCNGG	2 cut(s)	672, 754
MvaI	CCWGG	2 cut(s)	672, 754
MwoI	GCNNNNNNNGC	6 cut(s)	217, 244, 253, 442, 787, 790
NdeII	GATC	2 cut(s)	4, 697
NlaIII	CATG	4 cut(s)	355, 417, 453, 751
NlaIV	GGNNCC	1 cut(s)	393
NmeAIII	GCCGAG	1 cut(s)	709
NmuCI	GTSAC	1 cut(s)	586
NspI	RCATGY	1 cut(s)	417
PagI	TCATGA	1 cut(s)	351
PasI	CCCWGGG	1 cut(s)	753
PfeI	GAWTC	2 cut(s)	316, 454
Psp6I	CCWGG	2 cut(s)	670, 752
PspFI	CCCAGC	1 cut(s)	216
PspGI	CCWGG	2 cut(s)	670, 752
PspN4I	GGNNCC	1 cut(s)	393
PspPI	GGNCC	1 cut(s)	131
PstNI	CAGNNNCTG	1 cut(s)	781
PvuII	CAGCTG	2 cut(s)	386, 506
RseI	CAYNNNNRTG	1 cut(s)	605
SaqAI	TTAA	1 cut(s)	342
Sau3AI	GATC	2 cut(s)	4, 697
Sau96I	GGNCC	1 cut(s)	131
ScrFI	CCNGG	2 cut(s)	672, 754
SduI	GDGCHC	3 cut(s)	670, 721, 760
SetI	ASST	9 cut(s)	136, 261, 267, 361, 388, 438, 508, 739, 772
SfaNI	GCATC	1 cut(s)	664
SinI	GGWCC	1 cut(s)	131
SmiMI	CAYNNNNRTG	1 cut(s)	605
Sse9I	AATT	3 cut(s)	184, 339, 823
SsiI	CCGC	2 cut(s)	620, 779
SspI	AATATT	1 cut(s)	423
SspMI	CTAG	1 cut(s)	336
StyD4I	CCNGG	2 cut(s)	670, 752
StyI	CCWWGG	1 cut(s)	591
TaqI	TCGA	1 cut(s)	531
TasI	AATT	3 cut(s)	184, 339, 823
TauI	GCSGC	2 cut(s)	623, 781
TfiI	GAWTC	2 cut(s)	316, 454
Tru1I	TTAA	1 cut(s)	342
Tru9I	TTAA	1 cut(s)	342
TscAI	CASTG	2 cut(s)	402, 699
TseFI	GTSAC	1 cut(s)	586
Tsp45I	GTSAC	1 cut(s)	586
TspDTI	ATGAA	3 cut(s)	368, 415, 736
TspGWI	ACGGA	2 cut(s)	87, 536
TspRI	CASTG	2 cut(s)	402, 699
VpaK11BI	GGWCC	1 cut(s)	131
XceI	RCATGY	1 cut(s)	417
XcmI	CCANNNNNNNNNTGG	1 cut(s)	604
XspI	CTAG	1 cut(s)	336

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