Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0004804

Physical Location & Seq

Genomic Coordinates Reverse (-)

24126100 .. 24126714

Gene Structure 615 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG204700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 504 bp

ATGGTTCATGCCACCTGCTATGGTAATCCCCTTGTAAAGGGTATTCCAGAGGGGGATTGGTTCTGCTCGCAATGCTCCGGTTCTTCTGAGGCTTCACAGTCCAATGTGTCTTTCTCTTGCTGTCTGTGTCCCGGCAAAGGTGGAGCAATGAAGGCAACTGGAGATGGCCGGTGGGCACATATCGTGTGTGCTCTTTATGTTCCTGGGGTGTTCTTTAAGGACCCGGAAGGCCGAGAGGGGATTGATTGCTCAAAGGTTCCGAAGAGGAGGTGGAAAGAGAGGTGTTATGTTTGCAAGAGTGCAAGTGGGTGTGCTATTCAGTGCTCGGAAATCAAATGTCCTTTAGCGTTCCAGGTGACTTGTGGTTTCAACGAGGATCTTTGCATAGAGTACAGGGAAGGAAGGAAGGGTGATTTTATAGCTGGCTTTTGCAGAACCCACACTGATTTGTGGGAAAAGCGACAAGAATCTGGGAAGTTCAAGATCGTGGCTAGAAAAGACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0008150 GO:0009966 GO:0010646 GO:0023051 GO:0030111 GO:0048583 GO:0050789 GO:0050794 GO:0060828 GO:0065007

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PHD PHD_2 zf-HC5HC2H_2

Protein Analysis

167

Amino Acids

18.45

Weight (kDa)

8.45

Isoelectric Point (pI)

39.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-HC5HC2H_2	PF13832	39 - 136	1.3e-27	PHD-zinc-finger like domain
zf-HC5HC2H	PF13771	60 - 148	1.1e-16	PHD-like zinc-binding domain

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: OG0004804)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G14740 AT3G14740
fragaria_vesca	FvH4_3g17540 FvH4_3g17570 FvH4_3g17570 FvH4_3g17570 FvH4_3g17570
malus_domestica	MD03G1251300.v1.1 MD04G1118000.v1.1
prunus_persica	Prupe.4G155300_v2.0.a1
pyrus_communis	pycom03g19870
rosa_chinensis	RchiOBHm_Chr5g0029121 RchiOBHm_Chr5g0029161 RchiOBHm_Chr5g0029281
rosa_laevigata	RLG00000033147 RLG00000033149
rosa_multiflora	Rmu_co8077588.1_g000001 Rmu_sc0012347.1_g000003 Rmu_sc0025685.1_g000001
rosa_roxburghii	Rroxscaffold_1G00050720 Rroxscaffold_1G00050750
rosa_rugosa	Rorug05G0112800
rosa_samantha	Rh5AG204700 Rh5AG204900 Rh5BG203300 Rh5BG203600 Rh5CG224400 Rh5CG224500 Rh5DG207000
rosa_wichuraiana	Rw5G018580 Rw5G018630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	23
Acc36I	ACCTGC	1 cut(s)	23
AclWI	GGATC	1 cut(s)	384
AcoI	YGGCCR	1 cut(s)	166
AfaI	GTAC	1 cut(s)	392
AfiI	CCNNNNNNNGG	2 cut(s)	37, 137
AgsI	TTSAA	2 cut(s)	370, 481
AjnI	CCWGG	2 cut(s)	202, 351
AjuI	GAANNNNNNNTTGG	2 cut(s)	95, 127
AluBI	AGCT	1 cut(s)	422
AluI	AGCT	1 cut(s)	422
Alw21I	GWGCWC	2 cut(s)	193, 326
AlwI	GGATC	1 cut(s)	384
AoxI	GGCC	2 cut(s)	166, 229
AspS9I	GGNCC	1 cut(s)	220
AsuC2I	CCSGG	2 cut(s)	132, 224
AsuHPI	GGTGA	2 cut(s)	367, 422
AvaII	GGWCC	1 cut(s)	220
BaeGI	GKGCMC	1 cut(s)	178
Bbv12I	GWGCWC	2 cut(s)	193, 326
BccI	CCATC	1 cut(s)	158
BciT130I	CCWGG	2 cut(s)	204, 353
BcnI	CCSGG	2 cut(s)	132, 224
BfaI	CTAG	1 cut(s)	492
BfuAI	ACCTGC	1 cut(s)	23
Bme1390I	CCNGG	4 cut(s)	132, 204, 224, 353
Bme18I	GGWCC	1 cut(s)	220
BmgT120I	GGNCC	1 cut(s)	220
BmiI	GGNNCC	2 cut(s)	222, 258
BmrFI	CCNGG	4 cut(s)	132, 204, 224, 353
BpmI	CTGGAG	1 cut(s)	180
BpuMI	CCSGG	2 cut(s)	132, 224
BsaJI	CCNNGG	1 cut(s)	203
BsaWI	WCCGGW	1 cut(s)	77
Bsc4I	CCNNNNNNNGG	2 cut(s)	37, 137
Bse118I	RCCGGY	1 cut(s)	168
Bse1I	ACTGG	1 cut(s)	163
Bse3DI	GCAATG	2 cut(s)	77, 153
BseBI	CCWGG	2 cut(s)	204, 353
BseDI	CCNNGG	1 cut(s)	203
BseLI	CCNNNNNNNGG	2 cut(s)	37, 137
BseMI	GCAATG	2 cut(s)	77, 153
BseMII	CTCAG	1 cut(s)	78
BseNI	ACTGG	1 cut(s)	163
BseRI	GAGGAG	1 cut(s)	280
BseSI	GKGCMC	1 cut(s)	178
BshFI	GGCC	2 cut(s)	168, 231
BsiHKAI	GWGCWC	2 cut(s)	193, 326
BsiSI	CCGG	4 cut(s)	78, 132, 169, 224
BslFI	GGGAC	1 cut(s)	114
BslI	CCNNNNNNNGG	2 cut(s)	37, 137
BsmFI	GGGAC	1 cut(s)	114
BsnI	GGCC	2 cut(s)	168, 231
Bsp1286I	GDGCHC	3 cut(s)	178, 193, 326
Bsp143I	GATC	2 cut(s)	376, 483
BspANI	GGCC	2 cut(s)	168, 231
BspCNI	CTCAG	1 cut(s)	79
BspLI	GGNNCC	2 cut(s)	222, 258
BspMI	ACCTGC	1 cut(s)	23
BspPI	GGATC	1 cut(s)	384
BsrDI	GCAATG	2 cut(s)	77, 153
BsrFI	RCCGGY	1 cut(s)	168
BsrI	ACTGG	1 cut(s)	163
BssAI	RCCGGY	1 cut(s)	168
BssECI	CCNNGG	1 cut(s)	203
BssMI	GATC	2 cut(s)	376, 483
Bst2UI	CCWGG	2 cut(s)	204, 353
Bst4CI	ACNGT	1 cut(s)	99
Bst6I	CTCTTC	1 cut(s)	257
BstC8I	GCNNGC	2 cut(s)	68, 424
BstDEI	CTNAG	1 cut(s)	87
BstENI	CCTNNNNNAGG	1 cut(s)	35
BstKTI	GATC	2 cut(s)	379, 486
BstMBI	GATC	2 cut(s)	376, 483
BstMWI	GCNNNNNNNGC	2 cut(s)	72, 152
BstNI	CCWGG	2 cut(s)	204, 353
BstSCI	CCNGG	4 cut(s)	130, 202, 222, 351
BstSLI	GKGCMC	1 cut(s)	178
BstX2I	RGATCY	1 cut(s)	376
BstYI	RGATCY	1 cut(s)	376
BsuRI	GGCC	2 cut(s)	168, 231
BtsIMutI	CAGTG	2 cut(s)	326, 441
BveI	ACCTGC	1 cut(s)	23
Cac8I	GCNNGC	2 cut(s)	68, 424
Cfr10I	RCCGGY	1 cut(s)	168
Cfr13I	GGNCC	1 cut(s)	220
Csp6I	GTAC	1 cut(s)	391
CviAII	CATG	1 cut(s)	8
CviJI	RGCY	6 cut(s)	92, 168, 231, 422, 426, 491
CviKI_1	RGCY	6 cut(s)	92, 168, 231, 422, 426, 491
CviQI	GTAC	1 cut(s)	391
DdeI	CTNAG	1 cut(s)	87
DpnI	GATC	2 cut(s)	378, 485
DpnII	GATC	2 cut(s)	376, 483
EaeI	YGGCCR	1 cut(s)	166
Eam1104I	CTCTTC	1 cut(s)	257
EarI	CTCTTC	1 cut(s)	257
Eco47I	GGWCC	1 cut(s)	220
EcoNI	CCTNNNNNAGG	1 cut(s)	35
EcoO109I	RGGNCCY	1 cut(s)	220
EcoRII	CCWGG	2 cut(s)	202, 351
FaeI	CATG	1 cut(s)	11
FaiI	YATR	7 cut(s)	9, 21, 180, 198, 288, 386, 419
FaqI	GGGAC	1 cut(s)	114
FatI	CATG	1 cut(s)	7
FspBI	CTAG	1 cut(s)	492
GsuI	CTGGAG	1 cut(s)	180
HaeIII	GGCC	2 cut(s)	168, 231
HapII	CCGG	4 cut(s)	78, 132, 169, 224
Hin1II	CATG	1 cut(s)	11
HinfI	GANTC	1 cut(s)	467
HpaII	CCGG	4 cut(s)	78, 132, 169, 224
HphI	GGTGA	2 cut(s)	367, 422
Hpy188I	TCNGA	3 cut(s)	88, 261, 328
Hpy188III	TCNNGA	2 cut(s)	47, 481
HpyAV	CCTTC	5 cut(s)	145, 221, 392, 396, 400
HpyCH4III	ACNGT	1 cut(s)	99
HpyCH4V	TGCA	4 cut(s)	294, 302, 384, 432
HpyF10VI	GCNNNNNNNGC	2 cut(s)	72, 152
HpyF3I	CTNAG	1 cut(s)	87
Hsp92II	CATG	1 cut(s)	11
Kzo9I	GATC	2 cut(s)	376, 483
LmnI	GCTCC	2 cut(s)	80, 143
MaeI	CTAG	1 cut(s)	492
MaeIII	GTNAC	1 cut(s)	355
MalI	GATC	2 cut(s)	378, 485
MboI	GATC	2 cut(s)	376, 483
MboII	GAAGA	2 cut(s)	75, 274
MflI	RGATCY	1 cut(s)	376
MhlI	GDGCHC	3 cut(s)	178, 193, 326
MnlI	CCTC	7 cut(s)	43, 82, 229, 258, 261, 273, 367
MseI	TTAA	1 cut(s)	216
MspI	CCGG	4 cut(s)	78, 132, 169, 224
MspR9I	CCNGG	4 cut(s)	132, 204, 224, 353
MvaI	CCWGG	2 cut(s)	204, 353
MwoI	GCNNNNNNNGC	2 cut(s)	72, 152
NciI	CCSGG	2 cut(s)	132, 224
NdeII	GATC	2 cut(s)	376, 483
NlaIII	CATG	1 cut(s)	11
NlaIV	GGNNCC	2 cut(s)	222, 258
NmeAIII	GCCGAG	1 cut(s)	257
NmuCI	GTSAC	1 cut(s)	355
PaqCI	CACCTGC	1 cut(s)	23
PfeI	GAWTC	1 cut(s)	467
PpuMI	RGGWCCY	1 cut(s)	220
Psp5II	RGGWCCY	1 cut(s)	220
Psp6I	CCWGG	2 cut(s)	202, 351
PspGI	CCWGG	2 cut(s)	202, 351
PspN4I	GGNNCC	2 cut(s)	222, 258
PspPI	GGNCC	1 cut(s)	220
PspPPI	RGGWCCY	1 cut(s)	220
PsuI	RGATCY	1 cut(s)	376
RsaI	GTAC	1 cut(s)	392
RsaNI	GTAC	1 cut(s)	391
SaqAI	TTAA	1 cut(s)	216
Sau3AI	GATC	2 cut(s)	376, 483
Sau96I	GGNCC	1 cut(s)	220
ScrFI	CCNGG	4 cut(s)	132, 204, 224, 353
SduI	GDGCHC	3 cut(s)	178, 193, 326
SetI	ASST	7 cut(s)	17, 142, 258, 272, 284, 357, 424
SinI	GGWCC	1 cut(s)	220
SspMI	CTAG	1 cut(s)	492
StyD4I	CCNGG	4 cut(s)	130, 202, 222, 351
TaaI	ACNGT	1 cut(s)	99
TatI	WGTACW	1 cut(s)	390
TfiI	GAWTC	1 cut(s)	467
Tru1I	TTAA	1 cut(s)	216
Tru9I	TTAA	1 cut(s)	216
TscAI	CASTG	2 cut(s)	326, 448
TseFI	GTSAC	1 cut(s)	355
Tsp45I	GTSAC	1 cut(s)	355
TspDTI	ATGAA	1 cut(s)	164
TspRI	CASTG	2 cut(s)	326, 448
VpaK11BI	GGWCC	1 cut(s)	220
XagI	CCTNNNNNAGG	1 cut(s)	35
XcmI	CCANNNNNNNNNTGG	2 cut(s)	54, 359
XspI	CTAG	1 cut(s)	492

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