Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0004544

Physical Location & Seq

Genomic Coordinates Reverse (-)

31007496 .. 31008717

Gene Structure 1222 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ44932

Sequence Viewer

CDS Protein Promoter (2k)

Length: 255 bp

ATGCAAGATCATGTAAGTGACATACATGCCTCAGTTTCTTTCAATACAGATTTCATTCCATGCGTTATTCAAGAGATAGTGACTACTGGAAAGCTATTCAAGTTGGACCACTTTGAAACAGTTGAAAAGGTAAAAACAATAAGCTTATTCGAGGAAATATGGGGTGTAGGTCCAACTACTGCACTAAAATTATTTGAGAAAGGACATCGCACATTAGATGATTTGAAGAATGAAGATTCATTGACACATTCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000724 GO:0000725 GO:0000726 GO:0003674 GO:0003824 GO:0003887 GO:0005488 GO:0006139 GO:0006259 GO:0006281 GO:0006284 GO:0006285 GO:0006287 GO:0006289 GO:0006302 GO:0006303 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0009987 GO:0010224 GO:0016740 GO:0016772 GO:0016779 GO:0016829 GO:0016835 GO:0018130 GO:0019438 GO:0030145 GO:0033554 GO:0034061 GO:0034641 GO:0034645 GO:0034654 GO:0043167 GO:0043169 GO:0043170 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0046483 GO:0046872 GO:0046914 GO:0050896 GO:0051575 GO:0051716 GO:0071704 GO:0071897 GO:0090304 GO:0097510 GO:0140097 GO:1901360 GO:1901362 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko03410 ko03450 map03410 map03450

Pfam Domains

Protein Families

BRCT DNA_pol_B_palm DNA_pol_B_thumb DNA_pol_lambd_f HHH_8 LIM

Protein Analysis

84

Amino Acids

9.53

Weight (kDa)

5.16

Isoelectric Point (pI)

7.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_lambd_f	PF10391	49 - 83	6.9e-13	Fingers domain of DNA polymerase lambda

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0004544)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g23350 FvH4_6g44671
malus_domestica	MD07G1310100.v1.1
prunus_persica	Prupe.2G328000_v2.0.a1 Prupe.2G328000_v2.0.a1 Prupe.2G328000_v2.0.a1 Prupe.2G328000_v2.0.a1 Prupe.2G328000_v2.0.a1 Prupe.2G328000_v2.0.a1 Prupe.2G328000_v2.0.a1 Prupe.2G328000_v2.0.a1 Prupe.2G328000_v2.0.a1
pyrus_communis	pycom07g28220
rosa_chinensis	RchiOBHm_Chr1g0384481 RchiOBHm_Chr3g0484611
rosa_laevigata	RLG00000026038
rosa_multiflora	Rmu_co8409505.1_g000001 Rmu_sc0006005.1_g000002 Rmu_sc0027852.1_g000001
rosa_roxburghii	Rroxscaffold_4G00276670 Rroxscaffold_5G00378750 Rroxscaffold_7G00193860
rosa_rugosa	Rorug01G0448000 Rorug01G0448100 Rorug05G0567200
rosa_samantha	Rh1CG444500 Rh2DG337500 Rh2DG481000 Rh3AG228400 Rh7AG441300
rosa_wichuraiana	Rw0G003890 Rw1G039930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AgsI	TTSAA	6 cut(s)	43, 71, 100, 116, 125, 226
AluBI	AGCT	2 cut(s)	94, 144
AluI	AGCT	2 cut(s)	94, 144
AspS9I	GGNCC	2 cut(s)	106, 170
AvaII	GGWCC	2 cut(s)	106, 170
Bme18I	GGWCC	2 cut(s)	106, 170
BmgT120I	GGNCC	2 cut(s)	106, 170
Bse1I	ACTGG	1 cut(s)	91
BseMII	CTCAG	1 cut(s)	45
BseNI	ACTGG	1 cut(s)	91
BsgI	GTGCAG	1 cut(s)	165
Bsp143I	GATC	1 cut(s)	7
BspCNI	CTCAG	1 cut(s)	44
BsrI	ACTGG	1 cut(s)	91
BssMI	GATC	1 cut(s)	7
Bst4CI	ACNGT	1 cut(s)	121
BstDEI	CTNAG	1 cut(s)	31
BstKTI	GATC	1 cut(s)	10
BstMBI	GATC	1 cut(s)	7
BstNSI	RCATGY	1 cut(s)	29
BtgZI	GCGATG	1 cut(s)	191
Cfr13I	GGNCC	2 cut(s)	106, 170
CviAII	CATG	3 cut(s)	11, 26, 60
CviJI	RGCY	2 cut(s)	94, 144
CviKI_1	RGCY	2 cut(s)	94, 144
DdeI	CTNAG	1 cut(s)	31
DpnI	GATC	1 cut(s)	9
DpnII	GATC	1 cut(s)	7
Eco47I	GGWCC	2 cut(s)	106, 170
FaeI	CATG	3 cut(s)	14, 29, 63
FaiI	YATR	6 cut(s)	12, 23, 27, 61, 160, 253
FatI	CATG	3 cut(s)	10, 25, 59
Hin1II	CATG	3 cut(s)	14, 29, 63
HindIII	AAGCTT	1 cut(s)	142
HinfI	GANTC	1 cut(s)	236
Hpy188III	TCNNGA	1 cut(s)	71
HpyCH4III	ACNGT	1 cut(s)	121
HpyCH4V	TGCA	2 cut(s)	4, 182
HpyF3I	CTNAG	1 cut(s)	31
Hsp92II	CATG	3 cut(s)	14, 29, 63
Kzo9I	GATC	1 cut(s)	7
LpnPI	CCDG	1 cut(s)	72
MaeIII	GTNAC	2 cut(s)	17, 79
MalI	GATC	1 cut(s)	9
MboI	GATC	1 cut(s)	7
MboII	GAAGA	2 cut(s)	238, 245
MluCI	AATT	1 cut(s)	188
MmeI	TCCRAC	2 cut(s)	84, 197
MnlI	CCTC	2 cut(s)	40, 145
MslI	CAYNNNNRTG	1 cut(s)	15
NdeII	GATC	1 cut(s)	7
NlaIII	CATG	3 cut(s)	14, 29, 63
NmuCI	GTSAC	2 cut(s)	17, 79
NspI	RCATGY	1 cut(s)	29
PfeI	GAWTC	1 cut(s)	236
PspPI	GGNCC	2 cut(s)	106, 170
RseI	CAYNNNNRTG	1 cut(s)	15
Sau3AI	GATC	1 cut(s)	7
Sau96I	GGNCC	2 cut(s)	106, 170
SetI	ASST	4 cut(s)	96, 132, 146, 172
SgeI	CNNG	8 cut(s)	17, 23, 38, 72, 83, 99, 112, 163
SinI	GGWCC	2 cut(s)	106, 170
SmiMI	CAYNNNNRTG	1 cut(s)	15
Sse9I	AATT	1 cut(s)	188
TaaI	ACNGT	1 cut(s)	121
TaqI	TCGA	1 cut(s)	150
TasI	AATT	1 cut(s)	188
TfiI	GAWTC	1 cut(s)	236
TseFI	GTSAC	2 cut(s)	17, 79
Tsp45I	GTSAC	2 cut(s)	17, 79
TspDTI	ATGAA	4 cut(s)	43, 228, 240, 246
VpaK11BI	GGWCC	2 cut(s)	106, 170
XceI	RCATGY	1 cut(s)	29

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