Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0015394

Physical Location & Seq

Genomic Coordinates Forward (+)

79251471 .. 79251725

Gene Structure 255 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG563400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 255 bp

ATGGACAAGAACGACCCCAATGTGGCCACCGCAGTTGCCGAGCTCAGAGAAACGTCTAACTCGTGGGTGGCGAAGTACAGGAGGGAGAAAAATCTGCTGGCTAGGGTTTCATTCAGAGACATGTACTCGGCGATCAATGCCGTTTCGGGACACTATGTTAGTTTCGGGCCAACGGCTCCGATTCCGGCCAAGAGAAAGGCGAGGATCTTGGAAGAGGTCGAAACTGCAGAGAAAAACCTATTAAGGGGTAGATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006091 GO:0006807 GO:0008150 GO:0008152 GO:0009314 GO:0009416 GO:0009507 GO:0009534 GO:0009535 GO:0009536 GO:0009543 GO:0009579 GO:0009628 GO:0009642 GO:0009765 GO:0009987 GO:0010206 GO:0015979 GO:0016020 GO:0019538 GO:0019684 GO:0030091 GO:0031976 GO:0031977 GO:0031978 GO:0031984 GO:0034357 GO:0042651 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051716 GO:0055035 GO:0071214 GO:0071478 GO:0071482 GO:0071484 GO:0071704 GO:0104004 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko00195 ko01100 map00195 map01100

Pfam Domains

Protein Families

PSII_Pbs27

Protein Analysis

84

Amino Acids

9.48

Weight (kDa)

9.89

Isoelectric Point (pI)

38.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PSII_Pbs27	PF13326	1 - 80	1.9e-25	Photosystem II Pbs27

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0015394)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G03600
fragaria_vesca	FvH4_6g45050
malus_domestica	MD09G1090500.v1.1 MD17G1079700.v1.1
prunus_persica	Prupe.3G235100_v2.0.a1
pyrus_communis	pycom09g01520
rosa_chinensis	RchiOBHm_Chr2g0162381
rosa_laevigata	RLG00000021342
rosa_multiflora	Rmu_sc0004020.1_g000007
rosa_roxburghii	Rroxscaffold_2G00087970
rosa_rugosa	Rorug02G0497500
rosa_samantha	Rh2AG563400 Rh2BG575900 Rh2CG546200 Rh2DG586100
rosa_wichuraiana	Rw2G046620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	30
AclWI	GGATC	1 cut(s)	212
AcoI	YGGCCR	2 cut(s)	24, 186
AfaI	GTAC	2 cut(s)	77, 125
AfiI	CCNNNNNNNGG	2 cut(s)	22, 244
AflIII	ACRYGT	1 cut(s)	120
AluBI	AGCT	1 cut(s)	43
AluI	AGCT	1 cut(s)	43
Alw21I	GWGCWC	1 cut(s)	45
Alw26I	GTCTC	1 cut(s)	111
AlwI	GGATC	1 cut(s)	212
AoxI	GGCC	3 cut(s)	24, 167, 186
AspS9I	GGNCC	1 cut(s)	167
BalI	TGGCCA	1 cut(s)	26
BanII	GRGCYC	1 cut(s)	45
BauI	CACGAG	1 cut(s)	61
Bbv12I	GWGCWC	1 cut(s)	45
BceAI	ACGGC	2 cut(s)	125, 189
BcoDI	GTCTC	1 cut(s)	111
BfaI	CTAG	1 cut(s)	102
BfmI	CTRYAG	1 cut(s)	225
BmgT120I	GGNCC	1 cut(s)	167
BmiI	GGNNCC	1 cut(s)	177
Bsc4I	CCNNNNNNNGG	2 cut(s)	22, 244
BseLI	CCNNNNNNNGG	2 cut(s)	22, 244
BseMII	CTCAG	1 cut(s)	58
BshFI	GGCC	3 cut(s)	26, 169, 188
BsiHKAI	GWGCWC	1 cut(s)	45
BsiSI	CCGG	1 cut(s)	185
BslFI	GGGAC	1 cut(s)	162
BslI	CCNNNNNNNGG	2 cut(s)	22, 244
BsmAI	GTCTC	1 cut(s)	111
BsmFI	GGGAC	1 cut(s)	162
BsnI	GGCC	3 cut(s)	26, 169, 188
Bsp1286I	GDGCHC	1 cut(s)	45
Bsp143I	GATC	2 cut(s)	132, 204
BspACI	CCGC	1 cut(s)	30
BspANI	GGCC	3 cut(s)	26, 169, 188
BspCNI	CTCAG	1 cut(s)	57
BspLI	GGNNCC	1 cut(s)	177
BspMAI	CTGCAG	1 cut(s)	229
BspPI	GGATC	1 cut(s)	212
BssMI	GATC	2 cut(s)	132, 204
BssSI	CACGAG	1 cut(s)	61
Bst2BI	CACGAG	1 cut(s)	61
Bst6I	CTCTTC	1 cut(s)	207
BstC8I	GCNNGC	1 cut(s)	99
BstDEI	CTNAG	1 cut(s)	44
BstKTI	GATC	2 cut(s)	135, 207
BstMAI	GTCTC	1 cut(s)	111
BstMBI	GATC	2 cut(s)	132, 204
BstMWI	GCNNNNNNNGC	1 cut(s)	137
BstNSI	RCATGY	1 cut(s)	124
BstSFI	CTRYAG	1 cut(s)	225
BstX2I	RGATCY	1 cut(s)	204
BstYI	RGATCY	1 cut(s)	204
BsuRI	GGCC	3 cut(s)	26, 169, 188
Cac8I	GCNNGC	1 cut(s)	99
Cfr13I	GGNCC	1 cut(s)	167
Csp6I	GTAC	2 cut(s)	76, 124
CspCI	CAANNNNNGTGG	2 cut(s)	16, 51
CviAII	CATG	1 cut(s)	121
CviJI	RGCY	6 cut(s)	26, 43, 101, 169, 176, 188
CviKI_1	RGCY	6 cut(s)	26, 43, 101, 169, 176, 188
CviQI	GTAC	2 cut(s)	76, 124
DdeI	CTNAG	1 cut(s)	44
DpnI	GATC	2 cut(s)	134, 206
DpnII	GATC	2 cut(s)	132, 204
EaeI	YGGCCR	2 cut(s)	24, 186
Eam1104I	CTCTTC	1 cut(s)	207
EarI	CTCTTC	1 cut(s)	207
Ecl136II	GAGCTC	1 cut(s)	43
Eco24I	GRGCYC	1 cut(s)	45
Eco53kI	GAGCTC	1 cut(s)	43
EcoICRI	GAGCTC	1 cut(s)	43
EcoT38I	GRGCYC	1 cut(s)	45
FaeI	CATG	1 cut(s)	124
FaiI	YATR	2 cut(s)	122, 156
FaqI	GGGAC	1 cut(s)	162
FatI	CATG	1 cut(s)	120
FriOI	GRGCYC	1 cut(s)	45
FspBI	CTAG	1 cut(s)	102
HaeIII	GGCC	3 cut(s)	26, 169, 188
HapII	CCGG	1 cut(s)	185
Hin1II	CATG	1 cut(s)	124
HinfI	GANTC	1 cut(s)	181
HpaII	CCGG	1 cut(s)	185
Hpy188I	TCNGA	3 cut(s)	47, 116, 180
Hpy188III	TCNNGA	1 cut(s)	147
HpyCH4IV	ACGT	1 cut(s)	53
HpyCH4V	TGCA	1 cut(s)	227
HpyF10VI	GCNNNNNNNGC	1 cut(s)	137
HpyF3I	CTNAG	1 cut(s)	44
HpySE526I	ACGT	1 cut(s)	53
Hsp92II	CATG	1 cut(s)	124
Kzo9I	GATC	2 cut(s)	132, 204
LmnI	GCTCC	1 cut(s)	181
LpnPI	CCDG	3 cut(s)	64, 83, 198
MaeI	CTAG	1 cut(s)	102
MaeII	ACGT	1 cut(s)	53
MalI	GATC	2 cut(s)	134, 206
MboI	GATC	2 cut(s)	132, 204
MboII	GAAGA	1 cut(s)	224
MflI	RGATCY	1 cut(s)	204
MhlI	GDGCHC	1 cut(s)	45
MlsI	TGGCCA	1 cut(s)	26
MluNI	TGGCCA	1 cut(s)	26
MnlI	CCTC	3 cut(s)	75, 195, 208
Mox20I	TGGCCA	1 cut(s)	26
MscI	TGGCCA	1 cut(s)	26
MseI	TTAA	1 cut(s)	242
Msp20I	TGGCCA	1 cut(s)	26
MspI	CCGG	1 cut(s)	185
MwoI	GCNNNNNNNGC	1 cut(s)	137
NdeII	GATC	2 cut(s)	132, 204
NlaIII	CATG	1 cut(s)	124
NlaIV	GGNNCC	1 cut(s)	177
NmeAIII	GCCGAG	2 cut(s)	64, 107
NspI	RCATGY	1 cut(s)	124
PciI	ACATGT	1 cut(s)	120
PcsI	WCGNNNNNNNCGW	2 cut(s)	59, 68
PfeI	GAWTC	1 cut(s)	181
PscI	ACATGT	1 cut(s)	120
Psp124BI	GAGCTC	1 cut(s)	45
PspN4I	GGNNCC	1 cut(s)	177
PspPI	GGNCC	1 cut(s)	167
PstI	CTGCAG	1 cut(s)	229
PsuI	RGATCY	1 cut(s)	204
RsaI	GTAC	2 cut(s)	77, 125
RsaNI	GTAC	2 cut(s)	76, 124
SacI	GAGCTC	1 cut(s)	45
SaqAI	TTAA	1 cut(s)	242
Sau3AI	GATC	2 cut(s)	132, 204
Sau96I	GGNCC	1 cut(s)	167
SduI	GDGCHC	1 cut(s)	45
SetI	ASST	4 cut(s)	45, 56, 219, 240
SfcI	CTRYAG	1 cut(s)	225
SsiI	CCGC	1 cut(s)	30
SspMI	CTAG	1 cut(s)	102
SstI	GAGCTC	1 cut(s)	45
TaiI	ACGT	1 cut(s)	56
TaqI	TCGA	1 cut(s)	219
TatI	WGTACW	2 cut(s)	75, 123
TfiI	GAWTC	1 cut(s)	181
Tru1I	TTAA	1 cut(s)	242
Tru9I	TTAA	1 cut(s)	242
TspDTI	ATGAA	1 cut(s)	99
XceI	RCATGY	1 cut(s)	124
XspI	CTAG	1 cut(s)	102

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