Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0004544

Physical Location & Seq

Genomic Coordinates Forward (+)

59184512 .. 59187388

Gene Structure 2877 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00378750.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 783 bp

ATGGACTCGAAGATGGAAAACGGTTTGGAGATGGAGTCATGCCTGGGTCTTCAACTAGGAGGAAACTCTCAATATTTGAAGCTTGAAATTTGCCATATTGCTTCTCTTTGTGAGAAATTGGATTCAAGAGATAGTGACTACCGAAAGCTATCCAAGTTGGAGCACTTTGAAACAGATGAAAAGGTAAAAACAATTAGCTTATTTGAGGAAATATGCGGTGTAGGTCCAGCTACTGCACTAAAATTATTTGAAAAAGGACATCGCACATTAGATGATTTGAAGAATGAAGATTCATTGACACATTCACAGAAGTTGGGGTTAAGATATTATGAGGATATCAAACAGAGGATCCCACGGCATGAGCTGCCGTATCTTGGATTTAATTGGGCCAAAATGAAATTATTCTTTAATGATTCCTTGAGAACGACCTGTATAGAAAAATGTGAATGGGAACGACTTAGCTTCAATATCAACTCTTATTCTGAAGTGAGGAAGGTAGTTAGTCCAGACATTGGTGACATTATTGGCCTTGAATTAAAAGGAGATAATGCACTTATTGCTGCTGATATTGAGCGTTCTTCACTTGTTTTATGTGGCAATGCATTCTCGGATTCAAATGCAACTAAAGAAGCACTAGTTGTCTTGTCCGGATCTGTTATATTTGCCCGAAGAGACCTTCCCCTATTTGCAAGGCTTTTAGTGTTTGGTGATTATATGCTTCTTTTATGTGCACCGAAGATACCATTAAGGGTTGTGGAGATTTGTTGGTGCCAAGAGATGTAG

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

260

Amino Acids

29.57

Weight (kDa)

5.4

Isoelectric Point (pI)

41.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_lambd_f	PF10391	67 - 113	1.3e-18	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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Align Labels (Cladogram)

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Publication-ready

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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)	768
AccB7I	CCANNNNNTGG	1 cut(s)	512
AccIII	TCCGGA	1 cut(s)	647
AciI	CCGC	1 cut(s)	216
AclWI	GGATC	3 cut(s)	343, 356, 658
AcsI	RAATTY	1 cut(s)	87
AcuI	CTGAAG	1 cut(s)	504
AfiI	CCNNNNNNNGG	2 cut(s)	374, 512
AhlI	ACTAGT	1 cut(s)	634
AjnI	CCWGG	1 cut(s)	42
AluBI	AGCT	6 cut(s)	82, 148, 198, 230, 364, 462
AluI	AGCT	6 cut(s)	82, 148, 198, 230, 364, 462
Alw21I	GWGCWC	2 cut(s)	165, 733
Alw26I	GTCTC	1 cut(s)	666
Alw44I	GTGCAC	1 cut(s)	729
AlwI	GGATC	3 cut(s)	343, 356, 658
AlwNI	CAGNNNCTG	1 cut(s)	233
Aor13HI	TCCGGA	1 cut(s)	647
AoxI	GGCC	2 cut(s)	387, 526
ApaLI	GTGCAC	1 cut(s)	729
ApeKI	GCWGC	2 cut(s)	364, 560
ApoI	RAATTY	1 cut(s)	87
Asp700I	GAANNNNTTC	1 cut(s)	401
AspS9I	GGNCC	2 cut(s)	224, 387
AsuHPI	GGTGA	2 cut(s)	527, 719
AvaII	GGWCC	1 cut(s)	224
BaeGI	GKGCMC	1 cut(s)	733
BamHI	GGATCC	1 cut(s)	348
BanI	GGYRCC	1 cut(s)	768
BbsI	GAAGAC	1 cut(s)	41
Bbv12I	GWGCWC	2 cut(s)	165, 733
BbvI	GCAGC	2 cut(s)	351, 547
BccI	CCATC	2 cut(s)	7, 25
BceAI	ACGGC	2 cut(s)	352, 371
BciT130I	CCWGG	1 cut(s)	44
BcoDI	GTCTC	1 cut(s)	666
BcuI	ACTAGT	1 cut(s)	634
BfaI	CTAG	2 cut(s)	56, 635
BisI	GCNGC	2 cut(s)	365, 561
BlsI	GCNGC	2 cut(s)	366, 562
Bme1390I	CCNGG	1 cut(s)	44
Bme18I	GGWCC	1 cut(s)	224
BmgT120I	GGNCC	2 cut(s)	224, 387
BmiI	GGNNCC	2 cut(s)	350, 770
BmrFI	CCNGG	1 cut(s)	44
BpiI	GAAGAC	1 cut(s)	41
BpuEI	CTTGAG	1 cut(s)	439
BsaI	GGTCTC	1 cut(s)	666
BsaJI	CCNNGG	2 cut(s)	43, 353
BsaWI	WCCGGW	1 cut(s)	647
BsaXI	ACNNNNNCTCC	2 cut(s)	20, 50
Bsc4I	CCNNNNNNNGG	2 cut(s)	374, 512
Bse3DI	GCAATG	1 cut(s)	604
BseAI	TCCGGA	1 cut(s)	647
BseBI	CCWGG	1 cut(s)	44
BseDI	CCNNGG	2 cut(s)	43, 353
BseLI	CCNNNNNNNGG	2 cut(s)	374, 512
BseMI	GCAATG	1 cut(s)	604
BseSI	GKGCMC	1 cut(s)	733
BseXI	GCAGC	2 cut(s)	351, 547
BsgI	GTGCAG	1 cut(s)	219
BshFI	GGCC	2 cut(s)	389, 528
BshNI	GGYRCC	1 cut(s)	768
BsiHKAI	GWGCWC	2 cut(s)	165, 733
BsiSI	CCGG	1 cut(s)	648
BslI	CCNNNNNNNGG	2 cut(s)	374, 512
BsmAI	GTCTC	1 cut(s)	666
BsmI	GAATGC	1 cut(s)	602
BsnI	GGCC	2 cut(s)	389, 528
Bso31I	GGTCTC	1 cut(s)	666
Bsp1286I	GDGCHC	2 cut(s)	165, 733
Bsp13I	TCCGGA	1 cut(s)	647
Bsp143I	GATC	2 cut(s)	348, 650
BspACI	CCGC	1 cut(s)	216
BspANI	GGCC	2 cut(s)	389, 528
BspEI	TCCGGA	1 cut(s)	647
BspLI	GGNNCC	2 cut(s)	350, 770
BspPI	GGATC	3 cut(s)	343, 356, 658
BspT107I	GGYRCC	1 cut(s)	768
BspTNI	GGTCTC	1 cut(s)	666
BsrDI	GCAATG	1 cut(s)	604
BssECI	CCNNGG	2 cut(s)	43, 353
BssMI	GATC	2 cut(s)	348, 650
Bst2UI	CCWGG	1 cut(s)	44
Bst4CI	ACNGT	1 cut(s)	23
Bst6I	CTCTTC	1 cut(s)	664
BstAPI	GCANNNNNTGC	2 cut(s)	364, 557
BstDEI	CTNAG	1 cut(s)	458
BstDSI	CCRYGG	1 cut(s)	353
BstKTI	GATC	2 cut(s)	351, 653
BstMAI	GTCTC	1 cut(s)	666
BstMBI	GATC	2 cut(s)	348, 650
BstMWI	GCNNNNNNNGC	2 cut(s)	364, 557
BstNI	CCWGG	1 cut(s)	44
BstSCI	CCNGG	1 cut(s)	42
BstSLI	GKGCMC	1 cut(s)	733
BstV1I	GCAGC	2 cut(s)	351, 547
BstV2I	GAAGAC	1 cut(s)	41
BstX2I	RGATCY	2 cut(s)	348, 650
BstYI	RGATCY	2 cut(s)	348, 650
BsuRI	GGCC	2 cut(s)	389, 528
BtgI	CCRYGG	1 cut(s)	353
BtgZI	GCGATG	1 cut(s)	245
CaiI	CAGNNNCTG	1 cut(s)	233
Cfr13I	GGNCC	2 cut(s)	224, 387
CviAII	CATG	2 cut(s)	39, 359
CviJI	RGCY	9 cut(s)	82, 148, 198, 230, 364, 389, 462, 528, 694
CviKI_1	RGCY	9 cut(s)	82, 148, 198, 230, 364, 389, 462, 528, 694
DdeI	CTNAG	1 cut(s)	458
DpnI	GATC	2 cut(s)	350, 652
DpnII	GATC	2 cut(s)	348, 650
Eam1104I	CTCTTC	1 cut(s)	664
EarI	CTCTTC	1 cut(s)	664
Eco31I	GGTCTC	1 cut(s)	666
Eco32I	GATATC	1 cut(s)	337
Eco47I	GGWCC	1 cut(s)	224
Eco57I	CTGAAG	1 cut(s)	504
EcoRII	CCWGG	1 cut(s)	42
EcoRV	GATATC	1 cut(s)	337
EcoT22I	ATGCAT	1 cut(s)	604
FaeI	CATG	2 cut(s)	42, 362
FatI	CATG	2 cut(s)	38, 358
Fnu4HI	GCNGC	2 cut(s)	365, 561
Fsp4HI	GCNGC	2 cut(s)	365, 561
FspBI	CTAG	2 cut(s)	56, 635
GluI	GCNGC	2 cut(s)	365, 561
HaeIII	GGCC	2 cut(s)	389, 528
HapII	CCGG	1 cut(s)	648
Hin1II	CATG	2 cut(s)	42, 362
HindIII	AAGCTT	1 cut(s)	80
HinfI	GANTC	6 cut(s)	5, 35, 122, 290, 413, 611
HpaII	CCGG	1 cut(s)	648
HphI	GGTGA	2 cut(s)	527, 719
Hpy166II	GTNNAC	1 cut(s)	731
Hpy188I	TCNGA	2 cut(s)	484, 610
Hpy188III	TCNNGA	3 cut(s)	126, 506, 648
Hpy8I	GTNNAC	1 cut(s)	731
HpyAV	CCTTC	2 cut(s)	487, 686
HpyCH4III	ACNGT	1 cut(s)	23
HpyCH4V	TGCA	6 cut(s)	236, 551, 602, 620, 689, 731
HpyF10VI	GCNNNNNNNGC	2 cut(s)	364, 557
HpyF3I	CTNAG	1 cut(s)	458
Hsp92II	CATG	2 cut(s)	42, 362
Kpn2I	TCCGGA	1 cut(s)	647
Kzo9I	GATC	2 cut(s)	348, 650
LmnI	GCTCC	1 cut(s)	160
LpnPI	CCDG	6 cut(s)	29, 56, 240, 442, 519, 661
Lsp1109I	GCAGC	2 cut(s)	351, 547
MaeI	CTAG	2 cut(s)	56, 635
MaeIII	GTNAC	2 cut(s)	134, 515
MalI	GATC	2 cut(s)	350, 652
MboI	GATC	2 cut(s)	348, 650
MboII	GAAGA	7 cut(s)	22, 41, 292, 299, 570, 681, 748
MflI	RGATCY	2 cut(s)	348, 650
MhlI	GDGCHC	2 cut(s)	165, 733
MluCI	AATT	7 cut(s)	87, 116, 192, 242, 382, 398, 533
MlyI	GAGTC	1 cut(s)	44
MmeI	TCCRAC	1 cut(s)	138
MnlI	CCTC	5 cut(s)	53, 199, 325, 339, 483
Mph1103I	ATGCAT	1 cut(s)	604
MroI	TCCGGA	1 cut(s)	647
MroXI	GAANNNNTTC	1 cut(s)	401
MseI	TTAA	5 cut(s)	320, 381, 408, 536, 746
MspI	CCGG	1 cut(s)	648
MspR9I	CCNGG	1 cut(s)	44
Mva1269I	GAATGC	1 cut(s)	602
MvaI	CCWGG	1 cut(s)	44
MwoI	GCNNNNNNNGC	2 cut(s)	364, 557
NdeII	GATC	2 cut(s)	348, 650
NlaIII	CATG	2 cut(s)	42, 362
NlaIV	GGNNCC	2 cut(s)	350, 770
NmuCI	GTSAC	2 cut(s)	134, 515
NsiI	ATGCAT	1 cut(s)	604
PctI	GAATGC	1 cut(s)	602
PdmI	GAANNNNTTC	1 cut(s)	401
PfeI	GAWTC	4 cut(s)	122, 290, 413, 611
PflMI	CCANNNNNTGG	1 cut(s)	512
PkrI	GCNGC	2 cut(s)	366, 562
PleI	GAGTC	1 cut(s)	43
PpsI	GAGTC	1 cut(s)	43
Psp6I	CCWGG	1 cut(s)	42
PspGI	CCWGG	1 cut(s)	42
PspN4I	GGNNCC	2 cut(s)	350, 770
PspPI	GGNCC	2 cut(s)	224, 387
PstNI	CAGNNNCTG	1 cut(s)	233
PsuI	RGATCY	2 cut(s)	348, 650
SaqAI	TTAA	5 cut(s)	320, 381, 408, 536, 746
SatI	GCNGC	2 cut(s)	365, 561
Sau3AI	GATC	2 cut(s)	348, 650
Sau96I	GGNCC	2 cut(s)	224, 387
SchI	GAGTC	1 cut(s)	44
ScrFI	CCNGG	1 cut(s)	44
SduI	GDGCHC	2 cut(s)	165, 733
SinI	GGWCC	1 cut(s)	224
SmlI	CTYRAG	1 cut(s)	418
SmoI	CTYRAG	1 cut(s)	418
SpeI	ACTAGT	1 cut(s)	634
Sse9I	AATT	7 cut(s)	87, 116, 192, 242, 382, 398, 533
SsiI	CCGC	1 cut(s)	216
SspI	AATATT	1 cut(s)	74
SspMI	CTAG	2 cut(s)	56, 635
StyD4I	CCNGG	1 cut(s)	42
TaaI	ACNGT	1 cut(s)	23
TaqI	TCGA	1 cut(s)	8
TasI	AATT	7 cut(s)	87, 116, 192, 242, 382, 398, 533
TfiI	GAWTC	4 cut(s)	122, 290, 413, 611
Tru1I	TTAA	5 cut(s)	320, 381, 408, 536, 746
Tru9I	TTAA	5 cut(s)	320, 381, 408, 536, 746
TseFI	GTSAC	2 cut(s)	134, 515
TseI	GCWGC	2 cut(s)	364, 560
Tsp45I	GTSAC	2 cut(s)	134, 515
TspDTI	ATGAA	4 cut(s)	192, 282, 300, 410
Van91I	CCANNNNNTGG	1 cut(s)	512
VneI	GTGCAC	1 cut(s)	729
VpaK11BI	GGWCC	1 cut(s)	224
XapI	RAATTY	1 cut(s)	87
XmnI	GAANNNNTTC	1 cut(s)	401
XspI	CTAG	2 cut(s)	56, 635
Zsp2I	ATGCAT	1 cut(s)	604

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