Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0002242

Physical Location & Seq

Genomic Coordinates Forward (+)

14659127 .. 14661313

Gene Structure 2187 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000012027

Sequence Viewer

CDS Protein Promoter (2k)

Length: 609 bp

ATGTCCCGAGACTCCGACGACGCTCTTCGCCTCATCAATTGGTGCAAGGGTGGGGCCAAGACCAATGCCAACGCCGGCATTTTCGTCCTCATCACCGTCGAGATGCTACAACAGAGACAGGGACTTAGTTCAGGTGGACTAACGATTAAGGAGTTGAATGACTTGCTTGATCATTTGGCATCGGGTGAAAATAGGTATGTTGCTTTTGTCCTAGTTCTTAATGAGCTTGACATTGAAGTTGGAAAAGCTGTGCTCCCGCAACTAGCTATGAGAGTTGGTGATGCAACATTTGCATGGAAAAAGTTTCATGGAAAGGAAGTTGTTGTTGAGTGTAAATTCGACGGTGATCGGATCCAAATTCATAAGAATGAAACCGAAGTACATTACTTCTCAAGGAATTTTCTTGATCACTCTGAATTTGGACATGCGATGTCAGACATTATTATACGAAATGTTCAGGTTGATAGGTGTATTCTTGATGGTGAGATGTTGGTCTGGGACACATCACTGAATTGTTTTGCTGAGTTTGGTTCAAATCAAGAAATAGCAAAGGCAGCGAGGGATGGACTTGACAATGATAAACAGAATGTTGCAAATCAAGCATGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000726 GO:0003674 GO:0003824 GO:0003909 GO:0003910 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005911 GO:0006139 GO:0006259 GO:0006266 GO:0006281 GO:0006289 GO:0006297 GO:0006302 GO:0006303 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009314 GO:0009506 GO:0009628 GO:0009987 GO:0010165 GO:0010212 GO:0016874 GO:0016886 GO:0030054 GO:0032807 GO:0032991 GO:0033554 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048046 GO:0050896 GO:0051103 GO:0051716 GO:0055044 GO:0071704 GO:0090304 GO:0140097 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03450 map03450

Pfam Domains

Protein Families

BRCT_2 DNA_ligase_A_C DNA_ligase_A_M DNA_ligase_A_N DNA_ligase_IV

Protein Analysis

203

Amino Acids

22.57

Weight (kDa)

5.11

Isoelectric Point (pI)

33.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_ligase_A_M	PF01068	86 - 188	4.8e-18	ATP dependent DNA ligase 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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002242)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G57160 AT5G57160
fragaria_vesca	FvH4_4g07160
malus_domestica	MD16G1247900.v1.1
prunus_persica	Prupe.1G074600_v2.0.a1 Prupe.1G074600_v2.0.a1
pyrus_communis	pycom12g16110 pycom12g16210 pycom16g20800
rosa_chinensis	RchiOBHm_Chr0c22g0500591 RchiOBHm_Chr4g0399311 RchiOBHm_Chr5g0052491 RchiOBHm_Chr7g0206661
rosa_laevigata	RLG00000009274 RLG00000012027 RLG00000013478 RLG00000013735 RLG00000034678
rosa_multiflora	Rmu_co8101330.1_g000001 Rmu_co8329359.1_g000001 Rmu_sc0000924.1_g000031 Rmu_sc0003135.1_g000008
rosa_roxburghii	Rroxscaffold_4G00283390 Rroxscaffold_4G00329320 Rroxscaffold_5G00344240
rosa_rugosa	Rorug04G0016500
rosa_samantha	Rh2AG218900 Rh2BG192100 Rh2BG230700 Rh2CG361900 Rh2DG225100 Rh3BG254200 Rh3DG357600 Rh4AG094200 Rh4AG102100 Rh4BG091600 Rh4CG102400 Rh4CG110300 Rh4DG086300 Rh7DG237100 Rh7DG335000 Rh7DG335200
rosa_wichuraiana	Rw4G007730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	257
AclWI	GGATC	2 cut(s)	346, 359
AcsI	RAATTY	4 cut(s)	335, 357, 397, 416
AfaI	GTAC	1 cut(s)	381
AgsI	TTSAA	3 cut(s)	157, 236, 534
AluBI	AGCT	3 cut(s)	226, 248, 266
AluI	AGCT	3 cut(s)	226, 248, 266
Alw21I	GWGCWC	1 cut(s)	255
Alw26I	GTCTC	2 cut(s)	3, 109
AlwI	GGATC	2 cut(s)	346, 359
Ama87I	CYCGRG	1 cut(s)	6
AoxI	GGCC	1 cut(s)	54
ApeKI	GCWGC	1 cut(s)	554
ApoI	RAATTY	4 cut(s)	335, 357, 397, 416
AspS9I	GGNCC	1 cut(s)	54
AsuHPI	GGTGA	5 cut(s)	85, 197, 290, 356, 494
AvaI	CYCGRG	1 cut(s)	6
BamHI	GGATCC	1 cut(s)	351
Bbv12I	GWGCWC	1 cut(s)	255
BbvI	GCAGC	1 cut(s)	566
BccI	CCATC	2 cut(s)	473, 557
BclI	TGATCA	2 cut(s)	169, 406
BcoDI	GTCTC	2 cut(s)	3, 109
BfaI	CTAG	2 cut(s)	212, 263
BisI	GCNGC	1 cut(s)	555
BlsI	GCNGC	1 cut(s)	556
BmeT110I	CYCGRG	1 cut(s)	6
BmgT120I	GGNCC	1 cut(s)	54
BmiI	GGNNCC	2 cut(s)	55, 353
BmsI	GCATC	3 cut(s)	93, 188, 271
BpuEI	CTTGAG	1 cut(s)	376
Bse118I	RCCGGY	1 cut(s)	74
BseGI	GGATG	1 cut(s)	568
BseMII	CTCAG	1 cut(s)	513
BseXI	GCAGC	1 cut(s)	566
BshFI	GGCC	1 cut(s)	56
BsiHKAI	GWGCWC	1 cut(s)	255
BsiHKCI	CYCGRG	1 cut(s)	6
BsiSI	CCGG	1 cut(s)	75
BslFI	GGGAC	2 cut(s)	135, 512
BsmAI	GTCTC	2 cut(s)	3, 109
BsmFI	GGGAC	2 cut(s)	135, 512
BsnI	GGCC	1 cut(s)	56
BsoBI	CYCGRG	1 cut(s)	6
Bsp1286I	GDGCHC	1 cut(s)	255
Bsp143I	GATC	4 cut(s)	169, 346, 351, 406
BspACI	CCGC	1 cut(s)	257
BspANI	GGCC	1 cut(s)	56
BspCNI	CTCAG	1 cut(s)	514
BspLI	GGNNCC	2 cut(s)	55, 353
BspPI	GGATC	2 cut(s)	346, 359
BspQI	GCTCTTC	1 cut(s)	30
BsrFI	RCCGGY	1 cut(s)	74
BssAI	RCCGGY	1 cut(s)	74
BssMI	GATC	4 cut(s)	169, 346, 351, 406
Bst4CI	ACNGT	2 cut(s)	97, 344
Bst6I	CTCTTC	1 cut(s)	30
BstAPI	GCANNNNNTGC	1 cut(s)	290
BstC8I	GCNNGC	1 cut(s)	76
BstDEI	CTNAG	2 cut(s)	125, 522
BstF5I	GGATG	1 cut(s)	568
BstKTI	GATC	4 cut(s)	172, 349, 354, 409
BstMAI	GTCTC	2 cut(s)	3, 109
BstMBI	GATC	4 cut(s)	169, 346, 351, 406
BstMWI	GCNNNNNNNGC	3 cut(s)	290, 554, 599
BstNSI	RCATGY	2 cut(s)	428, 606
BstV1I	GCAGC	1 cut(s)	566
BstX2I	RGATCY	1 cut(s)	351
BstYI	RGATCY	1 cut(s)	351
BsuRI	GGCC	1 cut(s)	56
BtgZI	GCGATG	1 cut(s)	443
BtsCI	GGATG	1 cut(s)	568
BtsIMutI	CAGTG	1 cut(s)	506
Cac8I	GCNNGC	1 cut(s)	76
Cfr10I	RCCGGY	1 cut(s)	74
Cfr13I	GGNCC	1 cut(s)	54
CseI	GACGC	1 cut(s)	29
Csp6I	GTAC	1 cut(s)	380
CviAII	CATG	4 cut(s)	294, 308, 425, 603
CviJI	RGCY	4 cut(s)	56, 226, 248, 266
CviKI_1	RGCY	4 cut(s)	56, 226, 248, 266
CviQI	GTAC	1 cut(s)	380
DdeI	CTNAG	2 cut(s)	125, 522
DpnI	GATC	4 cut(s)	171, 348, 353, 408
DpnII	GATC	4 cut(s)	169, 346, 351, 406
Eam1104I	CTCTTC	1 cut(s)	30
EarI	CTCTTC	1 cut(s)	30
Eco88I	CYCGRG	1 cut(s)	6
FaeI	CATG	4 cut(s)	297, 311, 428, 606
FaiI	YATR	8 cut(s)	198, 269, 295, 309, 363, 426, 446, 604
FaqI	GGGAC	2 cut(s)	135, 512
FatI	CATG	4 cut(s)	293, 307, 424, 602
FauI	CCCGC	1 cut(s)	264
FbaI	TGATCA	2 cut(s)	169, 406
Fnu4HI	GCNGC	1 cut(s)	555
FokI	GGATG	1 cut(s)	575
Fsp4HI	GCNGC	1 cut(s)	555
FspBI	CTAG	2 cut(s)	212, 263
GluI	GCNGC	1 cut(s)	555
HaeIII	GGCC	1 cut(s)	56
HapII	CCGG	1 cut(s)	75
HgaI	GACGC	1 cut(s)	29
Hin1II	CATG	4 cut(s)	297, 311, 428, 606
HinfI	GANTC	1 cut(s)	11
HpaII	CCGG	1 cut(s)	75
HphI	GGTGA	5 cut(s)	85, 197, 290, 356, 494
Hpy166II	GTNNAC	1 cut(s)	137
Hpy188I	TCNGA	4 cut(s)	16, 351, 415, 436
Hpy188III	TCNNGA	5 cut(s)	6, 100, 404, 476, 539
Hpy8I	GTNNAC	1 cut(s)	137
Hpy99I	CGWCG	4 cut(s)	20, 23, 101, 344
HpyCH4III	ACNGT	2 cut(s)	97, 344
HpyCH4V	TGCA	4 cut(s)	45, 284, 293, 593
HpyF10VI	GCNNNNNNNGC	3 cut(s)	290, 554, 599
HpyF3I	CTNAG	2 cut(s)	125, 522
Hsp92II	CATG	4 cut(s)	297, 311, 428, 606
KroI	GCCGGC	1 cut(s)	74
KroNI	GCCGGC	1 cut(s)	76
Ksp22I	TGATCA	2 cut(s)	169, 406
Kzo9I	GATC	4 cut(s)	169, 346, 351, 406
LguI	GCTCTTC	1 cut(s)	30
LmnI	GCTCC	1 cut(s)	258
LpnPI	CCDG	5 cut(s)	88, 104, 117, 443, 481
Lsp1109I	GCAGC	1 cut(s)	566
LweI	GCATC	3 cut(s)	93, 188, 271
MaeI	CTAG	2 cut(s)	212, 263
MalI	GATC	4 cut(s)	171, 348, 353, 408
MboI	GATC	4 cut(s)	169, 346, 351, 406
MboII	GAAGA	1 cut(s)	17
MfeI	CAATTG	1 cut(s)	37
MflI	RGATCY	1 cut(s)	351
MhlI	GDGCHC	1 cut(s)	255
MluCI	AATT	6 cut(s)	37, 335, 357, 397, 416, 511
MlyI	GAGTC	1 cut(s)	5
MmeI	TCCRAC	2 cut(s)	39, 220
MnlI	CCTC	3 cut(s)	41, 98, 552
MroNI	GCCGGC	1 cut(s)	74
MseI	TTAA	2 cut(s)	147, 219
MslI	CAYNNNNRTG	2 cut(s)	292, 366
MspI	CCGG	1 cut(s)	75
MunI	CAATTG	1 cut(s)	37
MwoI	GCNNNNNNNGC	3 cut(s)	290, 554, 599
NaeI	GCCGGC	1 cut(s)	76
NdeII	GATC	4 cut(s)	169, 346, 351, 406
NgoMIV	GCCGGC	1 cut(s)	74
NlaIII	CATG	4 cut(s)	297, 311, 428, 606
NlaIV	GGNNCC	2 cut(s)	55, 353
NspI	RCATGY	2 cut(s)	428, 606
PciSI	GCTCTTC	1 cut(s)	30
PdiI	GCCGGC	1 cut(s)	76
PkrI	GCNGC	1 cut(s)	556
PleI	GAGTC	1 cut(s)	5
PpsI	GAGTC	1 cut(s)	5
PspN4I	GGNNCC	2 cut(s)	55, 353
PspPI	GGNCC	1 cut(s)	54
PsuI	RGATCY	1 cut(s)	351
RsaI	GTAC	1 cut(s)	381
RsaNI	GTAC	1 cut(s)	380
RseI	CAYNNNNRTG	2 cut(s)	292, 366
SapI	GCTCTTC	1 cut(s)	30
SaqAI	TTAA	2 cut(s)	147, 219
SatI	GCNGC	1 cut(s)	555
Sau3AI	GATC	4 cut(s)	169, 346, 351, 406
Sau96I	GGNCC	1 cut(s)	54
SchI	GAGTC	1 cut(s)	5
SduI	GDGCHC	1 cut(s)	255
SetI	ASST	7 cut(s)	136, 197, 228, 250, 268, 462, 470
SfaNI	GCATC	3 cut(s)	93, 188, 271
SmiMI	CAYNNNNRTG	2 cut(s)	292, 366
SmlI	CTYRAG	1 cut(s)	391
SmoI	CTYRAG	1 cut(s)	391
Sse9I	AATT	6 cut(s)	37, 335, 357, 397, 416, 511
SsiI	CCGC	1 cut(s)	257
SspMI	CTAG	2 cut(s)	212, 263
TaaI	ACNGT	2 cut(s)	97, 344
TaqI	TCGA	2 cut(s)	99, 339
TasI	AATT	6 cut(s)	37, 335, 357, 397, 416, 511
TatI	WGTACW	1 cut(s)	379
Tru1I	TTAA	2 cut(s)	147, 219
Tru9I	TTAA	2 cut(s)	147, 219
TscAI	CASTG	1 cut(s)	513
TseI	GCWGC	1 cut(s)	554
TspDTI	ATGAA	3 cut(s)	296, 350, 384
TspRI	CASTG	1 cut(s)	513
XapI	RAATTY	4 cut(s)	335, 357, 397, 416
XceI	RCATGY	2 cut(s)	428, 606
XspI	CTAG	2 cut(s)	212, 263

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