Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0016821

Physical Location & Seq

Genomic Coordinates Forward (+)

25391807 .. 25395352

Gene Structure 3546 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG142900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 696 bp

ATGGTTGATCACGTTACCGATCATTTGGCAGCAGCTTTGGCGATCTCCGAAGATGGTCGGACATCCTTTGGTCTGGCTGGTGCTGGTGCTGTGTCTTCTCATCACTCTGCGGTGGGGAGACTTCTCTCCATCACGGCCAAACGGACTATCTTGTTGGGTGATGATATGAATCTCTCAAACAATTCTTACCCACCTACTCCACAAGTTTTGCACGACTTCAAGCCTATGCCTTCCTCCCAAGAGGAGGCTGAAGCGGCTAGACGAAACAATTTTGTCCAACTGCAGATGAATAATGTGCAGCTGTTTTGGAATAAGCAATTGCTCGAGATTCACAATACATCAGTGTCTAGGAGTTGCCATCAACTACCTCTTGCGCGGGTGAAAAGGATTATGAAATCAAATGGAGTGGTCAAGATGATCAGTTCAGAGACTCCGATCTTGTTCTCGAAAGCATGTGAGCTATTCATAATGGAGCTTACACTTCGGGCATGGCTTCAGGCAGAAGTAAGCAAGAGGCGAACATTGCAGAAGTGTGACATTGCCAAGGCTATTAGGAACGATCAACTTCTTCACAATTTCTTGGCTCCTATTGTTCTCTGTACTCTCCATGACCACGAGGGCGAGAACAAGAACGAGATAGAGATTCTGGGTGACCCTTCATCAATGTCCCCCGCTCCTGGTTTTCCTTCCAAGTGA

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

231

Amino Acids

25.58

Weight (kDa)

7.78

Isoelectric Point (pI)

66.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	114 - 185	4.3e-16	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	121 - 184	3.4e-14	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

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Align Labels (Cladogram)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0016821)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g11310
malus_domestica	MD17G1250700.v1.1
prunus_persica	Prupe.3G149300_v2.0.a1
pyrus_communis	pycom09g17270 pycom14g13000 pycom17g25460
rosa_chinensis	RchiOBHm_Chr4g0407551
rosa_laevigata	RLG00000008711
rosa_roxburghii	Rroxscaffold_5G00352170
rosa_rugosa	Rorug04G0080300
rosa_samantha	Rh4AG145000 Rh4BG142900 Rh4CG151700 Rh4DG138900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	674
AccII	CGCG	1 cut(s)	376
AciI	CCGC	4 cut(s)	110, 254, 376, 672
AcoI	YGGCCR	1 cut(s)	135
AcuI	CTGAAG	2 cut(s)	270, 479
AfaI	GTAC	1 cut(s)	601
AfiI	CCNNNNNNNGG	2 cut(s)	244, 677
AgsI	TTSAA	1 cut(s)	220
AjnI	CCWGG	1 cut(s)	676
AluBI	AGCT	4 cut(s)	35, 301, 460, 475
AluI	AGCT	4 cut(s)	35, 301, 460, 475
Alw26I	GTCTC	2 cut(s)	112, 422
Ama87I	CYCGRG	1 cut(s)	323
AoxI	GGCC	1 cut(s)	135
ApeKI	GCWGC	3 cut(s)	29, 32, 298
AspLEI	GCGC	1 cut(s)	376
AsuHPI	GGTGA	3 cut(s)	170, 391, 662
AvaI	CYCGRG	1 cut(s)	323
BauI	CACGAG	1 cut(s)	614
BbsI	GAAGAC	1 cut(s)	87
BbvI	GCAGC	3 cut(s)	41, 44, 310
BccI	CCATC	3 cut(s)	47, 137, 366
BceAI	ACGGC	1 cut(s)	150
BciT130I	CCWGG	1 cut(s)	678
BclI	TGATCA	2 cut(s)	7, 417
BcoDI	GTCTC	2 cut(s)	112, 422
BfaI	CTAG	2 cut(s)	258, 348
BfmI	CTRYAG	1 cut(s)	281
BisI	GCNGC	4 cut(s)	30, 33, 255, 299
BlsI	GCNGC	4 cut(s)	31, 34, 256, 300
Bme1390I	CCNGG	1 cut(s)	678
BmeT110I	CYCGRG	1 cut(s)	323
BmiI	GGNNCC	1 cut(s)	585
BmrFI	CCNGG	1 cut(s)	678
BpiI	GAAGAC	1 cut(s)	87
BsaBI	GATNNNNATC	1 cut(s)	168
BsaJI	CCNNGG	1 cut(s)	543
Bsc4I	CCNNNNNNNGG	2 cut(s)	244, 677
Bse3DI	GCAATG	2 cut(s)	521, 537
Bse8I	GATNNNNATC	1 cut(s)	168
BseBI	CCWGG	1 cut(s)	678
BseDI	CCNNGG	1 cut(s)	543
BseGI	GGATG	1 cut(s)	62
BseJI	GATNNNNATC	1 cut(s)	168
BseLI	CCNNNNNNNGG	2 cut(s)	244, 677
BseMI	GCAATG	2 cut(s)	521, 537
BseRI	GAGGAG	1 cut(s)	257
BseXI	GCAGC	3 cut(s)	41, 44, 310
BsgI	GTGCAG	1 cut(s)	317
Bsh1236I	CGCG	1 cut(s)	376
BshFI	GGCC	1 cut(s)	137
BsiHKCI	CYCGRG	1 cut(s)	323
BslFI	GGGAC	1 cut(s)	652
BslI	CCNNNNNNNGG	2 cut(s)	244, 677
BsmAI	GTCTC	2 cut(s)	112, 422
BsmFI	GGGAC	1 cut(s)	652
BsnI	GGCC	1 cut(s)	137
BsoBI	CYCGRG	1 cut(s)	323
Bsp143I	GATC	6 cut(s)	7, 19, 42, 417, 435, 559
BspACI	CCGC	4 cut(s)	110, 254, 376, 672
BspANI	GGCC	1 cut(s)	137
BspFNI	CGCG	1 cut(s)	376
BspLI	GGNNCC	1 cut(s)	585
BspMAI	CTGCAG	1 cut(s)	285
BsrBI	CCGCTC	1 cut(s)	674
BsrDI	GCAATG	2 cut(s)	521, 537
BssECI	CCNNGG	1 cut(s)	543
BssMI	GATC	6 cut(s)	7, 19, 42, 417, 435, 559
BssSI	CACGAG	1 cut(s)	614
BssT1I	CCWWGG	1 cut(s)	543
Bst2BI	CACGAG	1 cut(s)	614
Bst2UI	CCWGG	1 cut(s)	678
BstEII	GGTNACC	1 cut(s)	650
BstF5I	GGATG	1 cut(s)	62
BstFNI	CGCG	1 cut(s)	376
BstHHI	GCGC	1 cut(s)	376
BstKTI	GATC	6 cut(s)	10, 22, 45, 420, 438, 562
BstMAI	GTCTC	2 cut(s)	112, 422
BstMBI	GATC	6 cut(s)	7, 19, 42, 417, 435, 559
BstMWI	GCNNNNNNNGC	3 cut(s)	38, 254, 523
BstNI	CCWGG	1 cut(s)	678
BstNSI	RCATGY	1 cut(s)	456
BstPI	GGTNACC	1 cut(s)	650
BstSCI	CCNGG	1 cut(s)	676
BstSFI	CTRYAG	1 cut(s)	281
BstUI	CGCG	1 cut(s)	376
BstV1I	GCAGC	3 cut(s)	41, 44, 310
BstV2I	GAAGAC	1 cut(s)	87
BsuRI	GGCC	1 cut(s)	137
BtsCI	GGATG	1 cut(s)	62
BtsIMutI	CAGTG	1 cut(s)	348
CfoI	GCGC	1 cut(s)	376
Csp6I	GTAC	1 cut(s)	600
CspCI	CAANNNNNGTGG	4 cut(s)	189, 224, 387, 422
CviAII	CATG	3 cut(s)	453, 489, 608
CviQI	GTAC	1 cut(s)	600
DpnI	GATC	6 cut(s)	9, 21, 44, 419, 437, 561
DpnII	GATC	6 cut(s)	7, 19, 42, 417, 435, 559
EaeI	YGGCCR	1 cut(s)	135
Eco130I	CCWWGG	1 cut(s)	543
Eco57I	CTGAAG	2 cut(s)	270, 479
Eco88I	CYCGRG	1 cut(s)	323
Eco91I	GGTNACC	1 cut(s)	650
EcoO65I	GGTNACC	1 cut(s)	650
EcoRII	CCWGG	1 cut(s)	676
EcoT14I	CCWWGG	1 cut(s)	543
ErhI	CCWWGG	1 cut(s)	543
FaeI	CATG	3 cut(s)	456, 492, 611
FaiI	YATR	7 cut(s)	167, 227, 392, 454, 467, 490, 609
FaqI	GGGAC	1 cut(s)	652
FatI	CATG	3 cut(s)	452, 488, 607
FauI	CCCGC	2 cut(s)	369, 679
FbaI	TGATCA	2 cut(s)	7, 417
Fnu4HI	GCNGC	4 cut(s)	30, 33, 255, 299
FokI	GGATG	1 cut(s)	49
Fsp4HI	GCNGC	4 cut(s)	30, 33, 255, 299
FspBI	CTAG	2 cut(s)	258, 348
GlaI	GCGC	1 cut(s)	375
GluI	GCNGC	4 cut(s)	30, 33, 255, 299
HaeIII	GGCC	1 cut(s)	137
HhaI	GCGC	1 cut(s)	376
Hin1II	CATG	3 cut(s)	456, 492, 611
Hin6I	GCGC	1 cut(s)	374
HinP1I	GCGC	1 cut(s)	374
HinfI	GANTC	4 cut(s)	169, 328, 430, 643
HphI	GGTGA	3 cut(s)	170, 391, 662
Hpy188I	TCNGA	4 cut(s)	49, 60, 427, 435
Hpy188III	TCNNGA	3 cut(s)	325, 412, 445
HpyAV	CCTTC	3 cut(s)	240, 666, 696
HpyCH4IV	ACGT	1 cut(s)	12
HpyCH4V	TGCA	4 cut(s)	211, 283, 298, 526
HpyF10VI	GCNNNNNNNGC	3 cut(s)	38, 254, 523
HpySE526I	ACGT	1 cut(s)	12
Hsp92II	CATG	3 cut(s)	456, 492, 611
HspAI	GCGC	1 cut(s)	374
Ksp22I	TGATCA	2 cut(s)	7, 417
Kzo9I	GATC	6 cut(s)	7, 19, 42, 417, 435, 559
LmnI	GCTCC	3 cut(s)	472, 589, 679
LpnPI	CCDG	7 cut(s)	59, 63, 69, 482, 632, 663, 690
Lsp1109I	GCAGC	3 cut(s)	41, 44, 310
MaeI	CTAG	2 cut(s)	258, 348
MaeII	ACGT	1 cut(s)	12
MaeIII	GTNAC	3 cut(s)	13, 533, 650
MalI	GATC	6 cut(s)	9, 21, 44, 419, 437, 561
MbiI	CCGCTC	1 cut(s)	674
MboI	GATC	6 cut(s)	7, 19, 42, 417, 435, 559
MboII	GAAGA	3 cut(s)	62, 87, 560
MfeI	CAATTG	1 cut(s)	317
MluCI	AATT	4 cut(s)	181, 268, 317, 574
MlyI	GAGTC	1 cut(s)	424
MmeI	TCCRAC	2 cut(s)	38, 301
MnlI	CCTC	6 cut(s)	235, 238, 244, 378, 507, 610
MspA1I	CMGCKG	1 cut(s)	301
MspR9I	CCNGG	1 cut(s)	678
MunI	CAATTG	1 cut(s)	317
MvaI	CCWGG	1 cut(s)	678
MvnI	CGCG	1 cut(s)	376
MwoI	GCNNNNNNNGC	3 cut(s)	38, 254, 523
NdeII	GATC	6 cut(s)	7, 19, 42, 417, 435, 559
NlaIII	CATG	3 cut(s)	456, 492, 611
NlaIV	GGNNCC	1 cut(s)	585
NmuCI	GTSAC	2 cut(s)	533, 650
NspI	RCATGY	1 cut(s)	456
PaeR7I	CTCGAG	1 cut(s)	323
PfeI	GAWTC	3 cut(s)	169, 328, 643
PkrI	GCNGC	4 cut(s)	31, 34, 256, 300
PleI	GAGTC	1 cut(s)	424
PpsI	GAGTC	1 cut(s)	424
Psp6I	CCWGG	1 cut(s)	676
PspEI	GGTNACC	1 cut(s)	650
PspGI	CCWGG	1 cut(s)	676
PspN4I	GGNNCC	1 cut(s)	585
PstI	CTGCAG	1 cut(s)	285
PvuII	CAGCTG	1 cut(s)	301
RsaI	GTAC	1 cut(s)	601
RsaNI	GTAC	1 cut(s)	600
SatI	GCNGC	4 cut(s)	30, 33, 255, 299
Sau3AI	GATC	6 cut(s)	7, 19, 42, 417, 435, 559
SchI	GAGTC	1 cut(s)	424
ScrFI	CCNGG	1 cut(s)	678
SetI	ASST	7 cut(s)	15, 37, 196, 303, 370, 462, 477
SfcI	CTRYAG	1 cut(s)	281
Sfr274I	CTCGAG	1 cut(s)	323
SlaI	CTCGAG	1 cut(s)	323
SmlI	CTYRAG	1 cut(s)	323
SmoI	CTYRAG	1 cut(s)	323
Sse9I	AATT	4 cut(s)	181, 268, 317, 574
SsiI	CCGC	4 cut(s)	110, 254, 376, 672
SspMI	CTAG	2 cut(s)	258, 348
StyD4I	CCNGG	1 cut(s)	676
StyI	CCWWGG	1 cut(s)	543
TaiI	ACGT	1 cut(s)	15
TaqI	TCGA	2 cut(s)	324, 446
TasI	AATT	4 cut(s)	181, 268, 317, 574
TatI	WGTACW	1 cut(s)	599
TauI	GCSGC	1 cut(s)	257
TfiI	GAWTC	3 cut(s)	169, 328, 643
TscAI	CASTG	1 cut(s)	348
TseFI	GTSAC	2 cut(s)	533, 650
TseI	GCWGC	3 cut(s)	29, 32, 298
Tsp45I	GTSAC	2 cut(s)	533, 650
TspDTI	ATGAA	5 cut(s)	182, 302, 407, 454, 648
TspGWI	ACGGA	1 cut(s)	157
TspRI	CASTG	1 cut(s)	348
XceI	RCATGY	1 cut(s)	456
XhoI	CTCGAG	1 cut(s)	323
XspI	CTAG	2 cut(s)	258, 348

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