Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0006037

Physical Location & Seq

Genomic Coordinates Forward (+)

12990787 .. 12991395

Gene Structure 609 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000011821

Sequence Viewer

CDS Protein Promoter (2k)

Length: 609 bp

ATGGCCGCCGAAACCGCCAGATCCACCGGCACGGTAAAGTGGTTCAGCGCCCAGAAAGGGTTCGGCTTCATATCCCCGAAGGACGGCGGCGAGGACCTCTTCGTCCACCAGACTTCGATCTTGTCCGACGGCTTCCGCACCCTCTCCGAGGGCCAGGCCGTCGAGTTCCTCATCGAAGTCAGCGAAGACGGCCGCACCAAAGCCGTCGACGTCGTCAACCTCACCCGATCCCGCCCTCCTGGCTTCGACCGCGGAGGACGCGGCCGCGGCGGCCGGAGGGGCAGAGGCCTCGGTGGTTATGGGAGGTCTGGCGGAGACCCGGAGGAATATAGTGTCGCCAGAGGAGGAGGGAGGGGTGACGGTTATGGCGGTCGTGGAGGTTATGGTGGTGGTGCTCGTGGCGGTGGTGGTGAGTGCTACAGTTGCGGTGAAATTGGGCATTTGGCGAGGGACTGTTACGAGGGAGGTGGCGGGGGTGGGAGATTTGGTGGCCGTGGGAGAGGTGGAGGTAGAGGCTACGGTGGCCGTGGTGGCGGCCGGGGGCGTCGGGGTGGTGGTTGTTATAATTGTGGAGAGGAAGGGCATTTGGCAAGGGAATGCGCGCCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CSD zf-CCHC

Protein Analysis

203

Amino Acids

20.56

Weight (kDa)

9.29

Isoelectric Point (pI)

49.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CSD	PF00313	9 - 72	3.3e-24	'Cold-shock' DNA-binding domain
zf-CCHC	PF00098	138 - 152	4e-06	Zinc knuckle
zf-CCHC	PF00098	186 - 200	2.9e-07	Zinc knuckle

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0006037)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G17870
fragaria_vesca	FvH4_1g11721 FvH4_1g11721 FvH4_2g26420
malus_domestica	MD02G1130700.v1.1 MD05G1089000.v1.1 MD15G1244400.v1.1 MD16G1153300.v1.1
prunus_persica	Prupe.1G503000_v2.0.a1 Prupe.7G169300_v2.0.a1
pyrus_communis	pycom15g21520 pycom15g31770
rosa_chinensis	RchiOBHm_Chr2g0099321 RchiOBHm_Chr6g0295081
rosa_laevigata	RLG00000011821 RLG00000016871
rosa_roxburghii	Rroxscaffold_2G00143210
rosa_rugosa	Rorug02G0078600 Rorug06G0249000
rosa_samantha	Rh2AG128100 Rh2AG369100 Rh2BG131000 Rh2CG132200 Rh6BG369800 Rh6CG376300
rosa_wichuraiana	Rw2G009890 Rw6G031600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	564
AasI	GACNNNNNNGTC	1 cut(s)	101
AatII	GACGTC	1 cut(s)	213
AccI	GTMKAC	1 cut(s)	207
AccII	CGCG	4 cut(s)	252, 261, 267, 602
AclWI	GGATC	2 cut(s)	15, 222
AcoI	YGGCCR	7 cut(s)	3, 190, 262, 271, 490, 523, 535
AcyI	GRCGYC	2 cut(s)	210, 544
AfiI	CCNNNNNNNGG	3 cut(s)	57, 83, 148
AjnI	CCWGG	2 cut(s)	153, 238
Alw21I	GWGCWC	1 cut(s)	397
Alw26I	GTCTC	1 cut(s)	309
AlwI	GGATC	2 cut(s)	15, 222
Asp700I	GAANNNNTTC	1 cut(s)	59
AspLEI	GCGC	3 cut(s)	50, 602, 604
AspS9I	GGNCC	2 cut(s)	94, 151
AsuC2I	CCSGG	2 cut(s)	320, 539
AsuHPI	GGTGA	4 cut(s)	214, 368, 422, 440
AvaII	GGWCC	1 cut(s)	94
BauI	CACGAG	1 cut(s)	396
BbsI	GAAGAC	1 cut(s)	192
Bbv12I	GWGCWC	1 cut(s)	397
BceAI	ACGGC	7 cut(s)	100, 143, 145, 188, 205, 477, 510
BcgI	CGANNNNNNTGC	2 cut(s)	271, 305
BciT130I	CCWGG	2 cut(s)	155, 240
BcnI	CCSGG	2 cut(s)	320, 539
BcoDI	GTCTC	1 cut(s)	309
BfmI	CTRYAG	1 cut(s)	418
BfoI	RGCGCY	1 cut(s)	51
BglI	GCCNNNNNGGC	4 cut(s)	240, 270, 279, 531
BisI	GCNGC	8 cut(s)	6, 88, 193, 262, 265, 268, 271, 535
BlsI	GCNGC	8 cut(s)	7, 89, 194, 263, 266, 269, 272, 536
Bme1390I	CCNGG	4 cut(s)	155, 240, 320, 539
Bme18I	GGWCC	1 cut(s)	94
BmgT120I	GGNCC	2 cut(s)	94, 151
BmrFI	CCNGG	4 cut(s)	155, 240, 320, 539
BpiI	GAAGAC	1 cut(s)	192
BpuMI	CCSGG	2 cut(s)	320, 539
BsaHI	GRCGYC	2 cut(s)	210, 544
BsaI	GGTCTC	1 cut(s)	309
BsaJI	CCNNGG	7 cut(s)	147, 250, 265, 289, 493, 526, 538
BsaXI	ACNNNNNCTCC	2 cut(s)	472, 502
Bsc4I	CCNNNNNNNGG	3 cut(s)	57, 83, 148
Bse118I	RCCGGY	1 cut(s)	26
BseBI	CCWGG	2 cut(s)	155, 240
BseDI	CCNNGG	7 cut(s)	147, 250, 265, 289, 493, 526, 538
BseLI	CCNNNNNNNGG	3 cut(s)	57, 83, 148
BsePI	GCGCGC	1 cut(s)	600
BseRI	GAGGAG	2 cut(s)	357, 360
BseX3I	CGGCCG	4 cut(s)	190, 262, 271, 535
Bsh1236I	CGCG	4 cut(s)	252, 261, 267, 602
Bsh1285I	CGRYCG	6 cut(s)	193, 250, 265, 274, 373, 538
BsiEI	CGRYCG	6 cut(s)	193, 250, 265, 274, 373, 538
BsiHKAI	GWGCWC	1 cut(s)	397
BsiSI	CCGG	4 cut(s)	27, 274, 320, 538
BslFI	GGGAC	1 cut(s)	464
BslI	CCNNNNNNNGG	3 cut(s)	57, 83, 148
BsmAI	GTCTC	1 cut(s)	309
BsmFI	GGGAC	1 cut(s)	464
BsmI	GAATGC	1 cut(s)	602
Bso31I	GGTCTC	1 cut(s)	309
Bsp1286I	GDGCHC	1 cut(s)	397
Bsp143I	GATC	3 cut(s)	20, 117, 227
BspFNI	CGCG	4 cut(s)	252, 261, 267, 602
BspPI	GGATC	2 cut(s)	15, 222
BspTNI	GGTCTC	1 cut(s)	309
BsrFI	RCCGGY	1 cut(s)	26
BssAI	RCCGGY	1 cut(s)	26
BssECI	CCNNGG	7 cut(s)	147, 250, 265, 289, 493, 526, 538
BssHII	GCGCGC	1 cut(s)	600
BssMI	GATC	3 cut(s)	20, 117, 227
BssNI	GRCGYC	2 cut(s)	210, 544
BssSI	CACGAG	1 cut(s)	396
Bst2BI	CACGAG	1 cut(s)	396
Bst2UI	CCWGG	2 cut(s)	155, 240
Bst4CI	ACNGT	5 cut(s)	34, 362, 422, 455, 521
Bst6I	CTCTTC	1 cut(s)	104
BstACI	GRCGYC	2 cut(s)	210, 544
BstC8I	GCNNGC	1 cut(s)	602
BstDSI	CCRYGG	4 cut(s)	250, 265, 493, 526
BstENI	CCTNNNNNAGG	1 cut(s)	146
BstFNI	CGCG	4 cut(s)	252, 261, 267, 602
BstH2I	RGCGCY	1 cut(s)	51
BstHHI	GCGC	3 cut(s)	50, 602, 604
BstKTI	GATC	3 cut(s)	23, 120, 230
BstMAI	GTCTC	1 cut(s)	309
BstMBI	GATC	3 cut(s)	20, 117, 227
BstMCI	CGRYCG	6 cut(s)	193, 250, 265, 274, 373, 538
BstNI	CCWGG	2 cut(s)	155, 240
BstSCI	CCNGG	4 cut(s)	153, 238, 318, 537
BstSFI	CTRYAG	1 cut(s)	418
BstUI	CGCG	4 cut(s)	252, 261, 267, 602
BstV2I	GAAGAC	1 cut(s)	192
BstX2I	RGATCY	1 cut(s)	20
BstYI	RGATCY	1 cut(s)	20
BstZI	CGGCCG	4 cut(s)	190, 262, 271, 535
BtgI	CCRYGG	4 cut(s)	250, 265, 493, 526
Cac8I	GCNNGC	1 cut(s)	602
CciNI	GCGGCCGC	1 cut(s)	262
CfoI	GCGC	3 cut(s)	50, 602, 604
Cfr10I	RCCGGY	1 cut(s)	26
Cfr13I	GGNCC	2 cut(s)	94, 151
Cfr42I	CCGCGG	2 cut(s)	253, 268
CseI	GACGC	2 cut(s)	267, 533
DpnI	GATC	3 cut(s)	22, 119, 229
DpnII	GATC	3 cut(s)	20, 117, 227
DrdI	GACNNNNNNGTC	1 cut(s)	101
DseDI	GACNNNNNNGTC	1 cut(s)	101
EaeI	YGGCCR	7 cut(s)	3, 190, 262, 271, 490, 523, 535
EagI	CGGCCG	4 cut(s)	190, 262, 271, 535
Eam1104I	CTCTTC	1 cut(s)	104
EarI	CTCTTC	1 cut(s)	104
EciI	GGCGGA	1 cut(s)	327
EclXI	CGGCCG	4 cut(s)	190, 262, 271, 535
Eco147I	AGGCCT	1 cut(s)	288
Eco31I	GGTCTC	1 cut(s)	309
Eco47I	GGWCC	1 cut(s)	94
Eco52I	CGGCCG	4 cut(s)	190, 262, 271, 535
EcoNI	CCTNNNNNAGG	1 cut(s)	146
EcoO109I	RGGNCCY	1 cut(s)	94
EcoRII	CCWGG	2 cut(s)	153, 238
FaiI	YATR	6 cut(s)	71, 300, 330, 366, 384, 564
FaqI	GGGAC	1 cut(s)	464
FauI	CCCGC	2 cut(s)	239, 464
FblI	GTMKAC	1 cut(s)	207
Fnu4HI	GCNGC	8 cut(s)	6, 88, 193, 262, 265, 268, 271, 535
Fsp4HI	GCNGC	8 cut(s)	6, 88, 193, 262, 265, 268, 271, 535
GlaI	GCGC	3 cut(s)	49, 601, 603
GluI	GCNGC	8 cut(s)	6, 88, 193, 262, 265, 268, 271, 535
HaeII	RGCGCY	1 cut(s)	51
HapII	CCGG	4 cut(s)	27, 274, 320, 538
HgaI	GACGC	2 cut(s)	267, 533
HhaI	GCGC	3 cut(s)	50, 602, 604
Hin1I	GRCGYC	2 cut(s)	210, 544
Hin6I	GCGC	3 cut(s)	48, 600, 602
HinP1I	GCGC	3 cut(s)	48, 600, 602
HincII	GTYRAC	2 cut(s)	208, 217
HindII	GTYRAC	2 cut(s)	208, 217
HpaII	CCGG	4 cut(s)	27, 274, 320, 538
HphI	GGTGA	4 cut(s)	214, 368, 422, 440
Hpy166II	GTNNAC	3 cut(s)	106, 208, 217
Hpy188I	TCNGA	2 cut(s)	127, 148
Hpy8I	GTNNAC	3 cut(s)	106, 208, 217
Hpy99I	CGWCG	6 cut(s)	131, 164, 209, 212, 215, 549
HpyAV	CCTTC	2 cut(s)	73, 572
HpyCH4III	ACNGT	5 cut(s)	34, 362, 422, 455, 521
HpyCH4IV	ACGT	1 cut(s)	210
HpySE526I	ACGT	1 cut(s)	210
Hsp92I	GRCGYC	2 cut(s)	210, 544
HspAI	GCGC	3 cut(s)	48, 600, 602
KspI	CCGCGG	2 cut(s)	253, 268
Kzo9I	GATC	3 cut(s)	20, 117, 227
MaeII	ACGT	1 cut(s)	210
MaeIII	GTNAC	2 cut(s)	356, 455
MalI	GATC	3 cut(s)	22, 119, 229
MboI	GATC	3 cut(s)	20, 117, 227
MboII	GAAGA	2 cut(s)	91, 197
MflI	RGATCY	1 cut(s)	20
MhlI	GDGCHC	1 cut(s)	397
MluCI	AATT	2 cut(s)	432, 565
MmeI	TCCRAC	1 cut(s)	150
MroXI	GAANNNNTTC	1 cut(s)	59
MspA1I	CMGCKG	2 cut(s)	252, 267
MspI	CCGG	4 cut(s)	27, 274, 320, 538
MspR9I	CCNGG	4 cut(s)	155, 240, 320, 539
Mva1269I	GAATGC	1 cut(s)	602
MvaI	CCWGG	2 cut(s)	155, 240
MvnI	CGCG	4 cut(s)	252, 261, 267, 602
NciI	CCSGG	2 cut(s)	320, 539
NdeII	GATC	3 cut(s)	20, 117, 227
NmuCI	GTSAC	1 cut(s)	356
NotI	GCGGCCGC	1 cut(s)	262
PauI	GCGCGC	1 cut(s)	600
PceI	AGGCCT	1 cut(s)	288
PcsI	WCGNNNNNNNCGW	1 cut(s)	180
PctI	GAATGC	1 cut(s)	602
PdmI	GAANNNNTTC	1 cut(s)	59
PflFI	GACNNNGTC	1 cut(s)	212
PkrI	GCNGC	8 cut(s)	7, 89, 194, 263, 266, 269, 272, 536
PpuMI	RGGWCCY	1 cut(s)	94
PsiI	TTATAA	1 cut(s)	564
Psp5II	RGGWCCY	1 cut(s)	94
Psp6I	CCWGG	2 cut(s)	153, 238
PspGI	CCWGG	2 cut(s)	153, 238
PspPI	GGNCC	2 cut(s)	94, 151
PspPPI	RGGWCCY	1 cut(s)	94
PsuI	RGATCY	1 cut(s)	20
PsyI	GACNNNGTC	1 cut(s)	212
PteI	GCGCGC	1 cut(s)	600
SacII	CCGCGG	2 cut(s)	253, 268
SalI	GTCGAC	1 cut(s)	206
SatI	GCNGC	8 cut(s)	6, 88, 193, 262, 265, 268, 271, 535
Sau3AI	GATC	3 cut(s)	20, 117, 227
Sau96I	GGNCC	2 cut(s)	94, 151
ScrFI	CCNGG	4 cut(s)	155, 240, 320, 539
SduI	GDGCHC	1 cut(s)	397
SetI	ASST	8 cut(s)	99, 213, 222, 308, 382, 469, 505, 511
SfcI	CTRYAG	1 cut(s)	418
SfiI	GGCCNNNNNGGCC	1 cut(s)	270
Sfr303I	CCGCGG	2 cut(s)	253, 268
SgrBI	CCGCGG	2 cut(s)	253, 268
SgrDI	CGTCGACG	1 cut(s)	206
SinI	GGWCC	1 cut(s)	94
Sse9I	AATT	2 cut(s)	432, 565
SseBI	AGGCCT	1 cut(s)	288
StuI	AGGCCT	1 cut(s)	288
StyD4I	CCNGG	4 cut(s)	153, 238, 318, 537
TaaI	ACNGT	5 cut(s)	34, 362, 422, 455, 521
TaiI	ACGT	1 cut(s)	213
TaqI	TCGA	5 cut(s)	116, 162, 174, 207, 246
TasI	AATT	2 cut(s)	432, 565
TauI	GCSGC	8 cut(s)	8, 90, 195, 264, 267, 270, 273, 537
TseFI	GTSAC	1 cut(s)	356
Tsp45I	GTSAC	1 cut(s)	356
TspDTI	ATGAA	1 cut(s)	58
Tth111I	GACNNNGTC	1 cut(s)	212
VpaK11BI	GGWCC	1 cut(s)	94
XagI	CCTNNNNNAGG	1 cut(s)	146
XmiI	GTMKAC	1 cut(s)	207
XmnI	GAANNNNTTC	1 cut(s)	59
ZraI	GACGTC	1 cut(s)	211

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