Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Contig00146

Orthogroup ID

OG0004544

Physical Location & Seq

Genomic Coordinates Reverse (-)

15391 .. 18473

Gene Structure 3083 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw0G003890.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 390 bp

ATTCAAGAGATAGTGACTACCAGAAAGCTATCCAAGTTGGAGCACTTTGAAACAGATGAAAAGGTAAAAACAATTAGCTTATTTGAGGAAATATGCGGTGTAGGTCCAGCTACTGCACTAAAATTATTTGAAAAAGGACATCGCACATTAGATGATTTGAAGAATGAAGATTCACTGACACATTCACAGAAGTTGGGGTTAAGATATTATGAGGATATCAAACAGAGGATCCCACGGCATGAGGGTTGTGGAGATTTGTTGGTGCCAGGAGATGTAGGAGTTATTCGTTCTTCTGAAGGTGTTGCCCCATTGTTTCAAACTGGAAGCTCTGGTAGCTCAAATCTATTCAAGTTGCCAGCTGCTGCAGTCCTTGCAACTTTTGACAGGTAA

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

129

Amino Acids

14.23

Weight (kDa)

6.1

Isoelectric Point (pI)

32.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_lambd_f	PF10391	27 - 73	3.6e-19	Fingers domain of DNA polymerase lambda

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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)
AccB1I	GGYRCC	1 cut(s)	262
AciI	CCGC	1 cut(s)	96
AclWI	GGATC	2 cut(s)	223, 236
AcuI	CTGAAG	1 cut(s)	315
AgsI	TTSAA	6 cut(s)	5, 50, 131, 160, 317, 349
AjnI	CCWGG	1 cut(s)	265
AluBI	AGCT	6 cut(s)	28, 78, 110, 327, 336, 359
AluI	AGCT	6 cut(s)	28, 78, 110, 327, 336, 359
Alw21I	GWGCWC	1 cut(s)	45
AlwI	GGATC	2 cut(s)	223, 236
AlwNI	CAGNNNCTG	2 cut(s)	113, 362
ApeKI	GCWGC	2 cut(s)	359, 362
AspS9I	GGNCC	1 cut(s)	104
AvaII	GGWCC	1 cut(s)	104
BamHI	GGATCC	1 cut(s)	228
BanI	GGYRCC	1 cut(s)	262
Bbv12I	GWGCWC	1 cut(s)	45
BbvI	GCAGC	2 cut(s)	346, 349
BceAI	ACGGC	1 cut(s)	251
BciT130I	CCWGG	1 cut(s)	267
BfmI	CTRYAG	1 cut(s)	363
BisI	GCNGC	2 cut(s)	360, 363
BlsI	GCNGC	2 cut(s)	361, 364
Bme1390I	CCNGG	1 cut(s)	267
Bme18I	GGWCC	1 cut(s)	104
BmgT120I	GGNCC	1 cut(s)	104
BmiI	GGNNCC	2 cut(s)	230, 264
BmrFI	CCNGG	1 cut(s)	267
BsaJI	CCNNGG	1 cut(s)	233
Bse1I	ACTGG	1 cut(s)	325
BseBI	CCWGG	1 cut(s)	267
BseDI	CCNNGG	1 cut(s)	233
BseNI	ACTGG	1 cut(s)	325
BseXI	GCAGC	2 cut(s)	346, 349
BsgI	GTGCAG	1 cut(s)	99
BshNI	GGYRCC	1 cut(s)	262
BsiHKAI	GWGCWC	1 cut(s)	45
Bsp1286I	GDGCHC	1 cut(s)	45
Bsp143I	GATC	1 cut(s)	228
BspACI	CCGC	1 cut(s)	96
BspLI	GGNNCC	2 cut(s)	230, 264
BspMAI	CTGCAG	1 cut(s)	367
BspPI	GGATC	2 cut(s)	223, 236
BspT107I	GGYRCC	1 cut(s)	262
BsrI	ACTGG	1 cut(s)	325
BssECI	CCNNGG	1 cut(s)	233
BssMI	GATC	1 cut(s)	228
Bst2UI	CCWGG	1 cut(s)	267
BstAPI	GCANNNNNTGC	1 cut(s)	371
BstC8I	GCNNGC	1 cut(s)	357
BstDSI	CCRYGG	1 cut(s)	233
BstKTI	GATC	1 cut(s)	231
BstMBI	GATC	1 cut(s)	228
BstMWI	GCNNNNNNNGC	2 cut(s)	333, 371
BstNI	CCWGG	1 cut(s)	267
BstSCI	CCNGG	1 cut(s)	265
BstSFI	CTRYAG	1 cut(s)	363
BstV1I	GCAGC	2 cut(s)	346, 349
BstX2I	RGATCY	1 cut(s)	228
BstYI	RGATCY	1 cut(s)	228
BtgI	CCRYGG	1 cut(s)	233
BtgZI	GCGATG	1 cut(s)	125
BtsIMutI	CAGTG	1 cut(s)	173
Cac8I	GCNNGC	1 cut(s)	357
CaiI	CAGNNNCTG	2 cut(s)	113, 362
Cfr13I	GGNCC	1 cut(s)	104
CviAII	CATG	1 cut(s)	239
CviJI	RGCY	6 cut(s)	28, 78, 110, 327, 336, 359
CviKI_1	RGCY	6 cut(s)	28, 78, 110, 327, 336, 359
DpnI	GATC	1 cut(s)	230
DpnII	GATC	1 cut(s)	228
Eco32I	GATATC	1 cut(s)	217
Eco47I	GGWCC	1 cut(s)	104
Eco57I	CTGAAG	1 cut(s)	315
EcoRII	CCWGG	1 cut(s)	265
EcoRV	GATATC	1 cut(s)	217
FaeI	CATG	1 cut(s)	242
FaiI	YATR	3 cut(s)	94, 210, 240
FatI	CATG	1 cut(s)	238
Fnu4HI	GCNGC	2 cut(s)	360, 363
Fsp4HI	GCNGC	2 cut(s)	360, 363
GluI	GCNGC	2 cut(s)	360, 363
Hin1II	CATG	1 cut(s)	242
HinfI	GANTC	1 cut(s)	170
Hpy188I	TCNGA	1 cut(s)	295
Hpy188III	TCNNGA	1 cut(s)	5
HpyAV	CCTTC	1 cut(s)	290
HpyCH4V	TGCA	3 cut(s)	116, 365, 374
HpyF10VI	GCNNNNNNNGC	2 cut(s)	333, 371
Hsp92II	CATG	1 cut(s)	242
Kzo9I	GATC	1 cut(s)	228
LmnI	GCTCC	1 cut(s)	40
LpnPI	CCDG	8 cut(s)	34, 120, 252, 279, 306, 315, 369, 370
Lsp1109I	GCAGC	2 cut(s)	346, 349
MaeIII	GTNAC	1 cut(s)	13
MalI	GATC	1 cut(s)	230
MboI	GATC	1 cut(s)	228
MboII	GAAGA	3 cut(s)	172, 179, 282
MflI	RGATCY	1 cut(s)	228
MhlI	GDGCHC	1 cut(s)	45
MluCI	AATT	2 cut(s)	72, 122
MmeI	TCCRAC	1 cut(s)	18
MnlI	CCTC	4 cut(s)	79, 205, 219, 235
MseI	TTAA	1 cut(s)	200
MspA1I	CMGCKG	1 cut(s)	359
MspR9I	CCNGG	1 cut(s)	267
MvaI	CCWGG	1 cut(s)	267
MwoI	GCNNNNNNNGC	2 cut(s)	333, 371
NdeII	GATC	1 cut(s)	228
NlaIII	CATG	1 cut(s)	242
NlaIV	GGNNCC	2 cut(s)	230, 264
NmuCI	GTSAC	1 cut(s)	13
PfeI	GAWTC	1 cut(s)	170
PkrI	GCNGC	2 cut(s)	361, 364
Psp6I	CCWGG	1 cut(s)	265
PspGI	CCWGG	1 cut(s)	265
PspN4I	GGNNCC	2 cut(s)	230, 264
PspPI	GGNCC	1 cut(s)	104
PstI	CTGCAG	1 cut(s)	367
PstNI	CAGNNNCTG	2 cut(s)	113, 362
PsuI	RGATCY	1 cut(s)	228
PvuII	CAGCTG	1 cut(s)	359
SaqAI	TTAA	1 cut(s)	200
SatI	GCNGC	2 cut(s)	360, 363
Sau3AI	GATC	1 cut(s)	228
Sau96I	GGNCC	1 cut(s)	104
ScrFI	CCNGG	1 cut(s)	267
SduI	GDGCHC	1 cut(s)	45
SfcI	CTRYAG	1 cut(s)	363
SinI	GGWCC	1 cut(s)	104
Sse9I	AATT	2 cut(s)	72, 122
SsiI	CCGC	1 cut(s)	96
StyD4I	CCNGG	1 cut(s)	265
TasI	AATT	2 cut(s)	72, 122
TfiI	GAWTC	1 cut(s)	170
Tru1I	TTAA	1 cut(s)	200
Tru9I	TTAA	1 cut(s)	200
TscAI	CASTG	1 cut(s)	180
TseFI	GTSAC	1 cut(s)	13
TseI	GCWGC	2 cut(s)	359, 362
Tsp45I	GTSAC	1 cut(s)	13
TspDTI	ATGAA	2 cut(s)	72, 180
TspRI	CASTG	1 cut(s)	180
VpaK11BI	GGWCC	1 cut(s)	104

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