Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0006037

Physical Location & Seq

Genomic Coordinates Reverse (-)

10839755 .. 10840540

Gene Structure 786 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000016871

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGGCGGAGGAGAGATCGACTGGGGTAGTGAAGTGGTTCAATGACACCAAGGGTTTCGGCTTCATCACCCCTGACAACAACACCGAAGATCTGTTCGTCCACCAATCCTCGATCAAATCCGACGGCTTCCGCACCGTCGCCGAGGGCGACGCAGTTGAGTTTCTGATCGCCGTCGGCGAGGACGGCAAGACCAAGGCCGTCGATGTCACTGGTCCGAACGGCGCGCCTCTGCCGGGAAAGGAGAGTTTTGCTCGCTCCGGCGGTCGTGGCGGTGGCGGTCGAGACGCTGCGGGATTCGGCGGTGCGTGGAGAGGTGGAGATCGCCGTAACGGCGGCGGCGGCGGCGGCGGCGGTTGTTATACTTGCGGCGATACTGGTCACATGGCTAGGGATTGCAATCGCGGTGGGAATGGAGGCCGCGGTGGTGGTGATGGATGCTTTACTTGCGGAGCGTATGGACACATGGCAAGGAATTGTCCGAACAGCGGCGGCGGTGGTGGCGGTGGCCGTGGTGGTGAGGGTTGCTACAAGTGTGGCGATTTTGGCCATTTGGCTAGGGACTGTTTCAATGGAGCCTCCAGTGGCGGAGGCGGAGGCGGCGGTGGTGCATGTTATACCTGTGGGGAGGTTGGTCACATGGCAAGGGATTGCACCAGGGGAGGGGGTGGCGGTGGACGCAGTGGCGGTCGGTATGGCTACAGTTCTGGATCTGGCGGCGGCAGCAACGGCTGTTACAACTGTGGGCAGGCTGGGCATTTTGCCAAGGAGTGTCCAAACCAGGCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000902 GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0006950 GO:0006970 GO:0006996 GO:0008150 GO:0008152 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009628 GO:0009631 GO:0009651 GO:0009653 GO:0009826 GO:0009987 GO:0010035 GO:0010501 GO:0016043 GO:0016049 GO:0016070 GO:0032392 GO:0032502 GO:0032508 GO:0032989 GO:0034641 GO:0040007 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048589 GO:0048856 GO:0048869 GO:0050896 GO:0051276 GO:0060560 GO:0071103 GO:0071704 GO:0071840 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CSD zf-CCHC

Protein Analysis

262

Amino Acids

25.6

Weight (kDa)

7.46

Isoelectric Point (pI)

37.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CSD	PF00313	7 - 71	1.9e-24	'Cold-shock' DNA-binding domain
zf-CCHC	PF00098	118 - 132	2.9e-06	Zinc knuckle
zf-CCHC	PF00098	145 - 161	5.2e-06	Zinc knuckle
zf-CCHC	PF00098	174 - 189	7e-06	Zinc knuckle
zf-CCHC	PF00098	203 - 218	4.3e-08	Zinc knuckle
zf-CCHC	PF00098	243 - 259	1e-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

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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)
AccII	CGCG	3 cut(s)	224, 402, 420
AclWI	GGATC	1 cut(s)	715
AcoI	YGGCCR	2 cut(s)	505, 544
AfiI	CCNNNNNNNGG	3 cut(s)	233, 485, 660
AgsI	TTSAA	2 cut(s)	40, 568
AjnI	CCWGG	2 cut(s)	653, 777
Alw26I	GTCTC	1 cut(s)	276
AlwI	GGATC	1 cut(s)	715
AoxI	GGCC	4 cut(s)	195, 415, 505, 544
ApeKI	GCWGC	2 cut(s)	287, 720
AscI	GGCGCGCC	1 cut(s)	222
Asp700I	GAANNNNTTC	1 cut(s)	35
AspLEI	GCGC	2 cut(s)	224, 226
AspS9I	GGNCC	1 cut(s)	212
AsuC2I	CCSGG	1 cut(s)	234
AsuHPI	GGTGA	3 cut(s)	58, 440, 527
AvaII	GGWCC	1 cut(s)	212
BalI	TGGCCA	1 cut(s)	546
BbvI	GCAGC	2 cut(s)	274, 732
BccI	CCATC	1 cut(s)	425
BceAI	ACGGC	9 cut(s)	139, 155, 182, 199, 235, 309, 346, 492, 742
BciT130I	CCWGG	2 cut(s)	655, 779
BcnI	CCSGG	1 cut(s)	234
BcoDI	GTCTC	1 cut(s)	276
BfaI	CTAG	2 cut(s)	387, 555
BfmI	CTRYAG	1 cut(s)	697
BglI	GCCNNNNNGGC	1 cut(s)	330
BglII	AGATCT	1 cut(s)	88
Bme1390I	CCNGG	3 cut(s)	234, 655, 779
Bme18I	GGWCC	1 cut(s)	212
BmgT120I	GGNCC	1 cut(s)	212
BmiI	GGNNCC	1 cut(s)	574
BmrFI	CCNGG	3 cut(s)	234, 655, 779
BmrI	ACTGGG	1 cut(s)	30
BmsI	GCATC	1 cut(s)	425
BmuI	ACTGGG	1 cut(s)	30
BplI	GAGNNNNNCTC	2 cut(s)	235, 267
BpmI	CTGGAG	1 cut(s)	562
BpuMI	CCSGG	1 cut(s)	234
BsaBI	GATNNNNATC	1 cut(s)	396
BsaJI	CCNNGG	7 cut(s)	48, 141, 192, 418, 508, 654, 762
Bsc4I	CCNNNNNNNGG	3 cut(s)	233, 485, 660
Bse1I	ACTGG	4 cut(s)	25, 214, 379, 579
Bse8I	GATNNNNATC	1 cut(s)	396
BseBI	CCWGG	2 cut(s)	655, 779
BseDI	CCNNGG	7 cut(s)	48, 141, 192, 418, 508, 654, 762
BseGI	GGATG	1 cut(s)	440
BseJI	GATNNNNATC	1 cut(s)	396
BseLI	CCNNNNNNNGG	3 cut(s)	233, 485, 660
BseNI	ACTGG	4 cut(s)	25, 214, 379, 579
BsePI	GCGCGC	1 cut(s)	222
BseRI	GAGGAG	1 cut(s)	23
BseXI	GCAGC	2 cut(s)	274, 732
BseYI	CCCAGC	1 cut(s)	749
Bsh1236I	CGCG	3 cut(s)	224, 402, 420
Bsh1285I	CGRYCG	3 cut(s)	265, 280, 688
BshFI	GGCC	4 cut(s)	197, 417, 507, 546
BsiEI	CGRYCG	3 cut(s)	265, 280, 688
BsiSI	CCGG	2 cut(s)	233, 258
BslFI	GGGAC	1 cut(s)	572
BslI	CCNNNNNNNGG	3 cut(s)	233, 485, 660
BsmAI	GTCTC	1 cut(s)	276
BsmBI	CGTCTC	1 cut(s)	276
BsmFI	GGGAC	1 cut(s)	572
BsnI	GGCC	4 cut(s)	197, 417, 507, 546
Bsp143I	GATC	6 cut(s)	14, 88, 111, 165, 319, 707
BspANI	GGCC	4 cut(s)	197, 417, 507, 546
BspFNI	CGCG	3 cut(s)	224, 402, 420
BspLI	GGNNCC	1 cut(s)	574
BspPI	GGATC	1 cut(s)	715
BsrI	ACTGG	4 cut(s)	25, 214, 379, 579
BssECI	CCNNGG	7 cut(s)	48, 141, 192, 418, 508, 654, 762
BssHII	GCGCGC	1 cut(s)	222
BssMI	GATC	6 cut(s)	14, 88, 111, 165, 319, 707
BssT1I	CCWWGG	3 cut(s)	48, 192, 762
Bst2UI	CCWGG	2 cut(s)	655, 779
Bst4CI	ACNGT	4 cut(s)	136, 563, 701, 740
BstC8I	GCNNGC	3 cut(s)	224, 253, 747
BstDSI	CCRYGG	2 cut(s)	418, 508
BstF5I	GGATG	1 cut(s)	440
BstFNI	CGCG	3 cut(s)	224, 402, 420
BstHHI	GCGC	2 cut(s)	224, 226
BstKTI	GATC	6 cut(s)	17, 91, 114, 168, 322, 710
BstMAI	GTCTC	1 cut(s)	276
BstMBI	GATC	6 cut(s)	14, 88, 111, 165, 319, 707
BstMCI	CGRYCG	3 cut(s)	265, 280, 688
BstNI	CCWGG	2 cut(s)	655, 779
BstNSI	RCATGY	1 cut(s)	612
BstSCI	CCNGG	3 cut(s)	232, 653, 777
BstSFI	CTRYAG	1 cut(s)	697
BstUI	CGCG	3 cut(s)	224, 402, 420
BstV1I	GCAGC	2 cut(s)	274, 732
BstX2I	RGATCY	2 cut(s)	88, 707
BstYI	RGATCY	2 cut(s)	88, 707
BsuRI	GGCC	4 cut(s)	197, 417, 507, 546
BtgI	CCRYGG	2 cut(s)	418, 508
BtsCI	GGATG	1 cut(s)	440
BtsI	GCAGTG	1 cut(s)	685
BtsIMutI	CAGTG	3 cut(s)	207, 586, 685
Cac8I	GCNNGC	3 cut(s)	224, 253, 747
CfoI	GCGC	2 cut(s)	224, 226
Cfr13I	GGNCC	1 cut(s)	212
Cfr42I	CCGCGG	1 cut(s)	421
CseI	GACGC	3 cut(s)	158, 293, 684
CspCI	CAANNNNNGTGG	2 cut(s)	385, 420
CviAII	CATG	4 cut(s)	382, 463, 609, 637
DpnI	GATC	6 cut(s)	16, 90, 113, 167, 321, 709
DpnII	GATC	6 cut(s)	14, 88, 111, 165, 319, 707
EaeI	YGGCCR	2 cut(s)	505, 544
EciI	GGCGGA	3 cut(s)	20, 600, 606
Eco130I	CCWWGG	3 cut(s)	48, 192, 762
Eco47I	GGWCC	1 cut(s)	212
EcoRII	CCWGG	2 cut(s)	653, 777
EcoT14I	CCWWGG	3 cut(s)	48, 192, 762
ErhI	CCWWGG	3 cut(s)	48, 192, 762
Esp3I	CGTCTC	1 cut(s)	276
FaeI	CATG	4 cut(s)	385, 466, 612, 640
FaiI	YATR	8 cut(s)	360, 383, 456, 464, 610, 615, 638, 693
FaqI	GGGAC	1 cut(s)	572
FatI	CATG	4 cut(s)	381, 462, 608, 636
FauI	CCCGC	1 cut(s)	283
FokI	GGATG	1 cut(s)	447
FspBI	CTAG	2 cut(s)	387, 555
GlaI	GCGC	2 cut(s)	223, 225
GsaI	CCCAGC	1 cut(s)	753
GsuI	CTGGAG	1 cut(s)	562
HaeIII	GGCC	4 cut(s)	197, 417, 507, 546
HapII	CCGG	2 cut(s)	233, 258
HgaI	GACGC	3 cut(s)	158, 293, 684
HhaI	GCGC	2 cut(s)	224, 226
Hin1II	CATG	4 cut(s)	385, 466, 612, 640
Hin6I	GCGC	2 cut(s)	222, 224
HinP1I	GCGC	2 cut(s)	222, 224
HinfI	GANTC	1 cut(s)	294
HpaII	CCGG	2 cut(s)	233, 258
HphI	GGTGA	3 cut(s)	58, 440, 527
Hpy166II	GTNNAC	2 cut(s)	100, 674
Hpy188I	TCNGA	4 cut(s)	121, 165, 216, 480
Hpy188III	TCNNGA	2 cut(s)	281, 705
Hpy8I	GTNNAC	2 cut(s)	100, 674
Hpy99I	CGWCG	5 cut(s)	125, 140, 152, 176, 203
HpyCH4III	ACNGT	4 cut(s)	136, 563, 701, 740
HpyCH4V	TGCA	3 cut(s)	396, 608, 651
Hsp92II	CATG	4 cut(s)	385, 466, 612, 640
HspAI	GCGC	2 cut(s)	222, 224
KspI	CCGCGG	1 cut(s)	421
Kzo9I	GATC	6 cut(s)	14, 88, 111, 165, 319, 707
LmnI	GCTCC	3 cut(s)	260, 449, 572
Lsp1109I	GCAGC	2 cut(s)	274, 732
LweI	GCATC	1 cut(s)	425
MaeI	CTAG	2 cut(s)	387, 555
MaeIII	GTNAC	5 cut(s)	205, 326, 377, 632, 731
MalI	GATC	6 cut(s)	16, 90, 113, 167, 321, 709
MboI	GATC	6 cut(s)	14, 88, 111, 165, 319, 707
MboII	GAAGA	1 cut(s)	98
MflI	RGATCY	2 cut(s)	88, 707
MlsI	TGGCCA	1 cut(s)	546
MluCI	AATT	1 cut(s)	472
MluNI	TGGCCA	1 cut(s)	546
MmeI	TCCRAC	1 cut(s)	144
Mox20I	TGGCCA	1 cut(s)	546
MroXI	GAANNNNTTC	1 cut(s)	35
MscI	TGGCCA	1 cut(s)	546
Msp20I	TGGCCA	1 cut(s)	546
MspA1I	CMGCKG	2 cut(s)	420, 486
MspI	CCGG	2 cut(s)	233, 258
MspR9I	CCNGG	3 cut(s)	234, 655, 779
MvaI	CCWGG	2 cut(s)	655, 779
MvnI	CGCG	3 cut(s)	224, 402, 420
NciI	CCSGG	1 cut(s)	234
NdeII	GATC	6 cut(s)	14, 88, 111, 165, 319, 707
NlaIII	CATG	4 cut(s)	385, 466, 612, 640
NlaIV	GGNNCC	1 cut(s)	574
NmeAIII	GCCGAG	1 cut(s)	166
NmuCI	GTSAC	3 cut(s)	205, 377, 632
NspI	RCATGY	1 cut(s)	612
PalAI	GGCGCGCC	1 cut(s)	222
PauI	GCGCGC	1 cut(s)	222
PcsI	WCGNNNNNNNCGW	2 cut(s)	144, 174
PdmI	GAANNNNTTC	1 cut(s)	35
PfeI	GAWTC	1 cut(s)	294
Psp6I	CCWGG	2 cut(s)	653, 777
PspFI	CCCAGC	1 cut(s)	749
PspGI	CCWGG	2 cut(s)	653, 777
PspN4I	GGNNCC	1 cut(s)	574
PspPI	GGNCC	1 cut(s)	212
PsuI	RGATCY	2 cut(s)	88, 707
PteI	GCGCGC	1 cut(s)	222
SacII	CCGCGG	1 cut(s)	421
Sau3AI	GATC	6 cut(s)	14, 88, 111, 165, 319, 707
Sau96I	GGNCC	1 cut(s)	212
ScrFI	CCNGG	3 cut(s)	234, 655, 779
SetI	ASST	3 cut(s)	316, 620, 630
SfaNI	GCATC	1 cut(s)	425
SfcI	CTRYAG	1 cut(s)	697
Sfr303I	CCGCGG	1 cut(s)	421
SgrBI	CCGCGG	1 cut(s)	421
SgsI	GGCGCGCC	1 cut(s)	222
SinI	GGWCC	1 cut(s)	212
Sse9I	AATT	1 cut(s)	472
SspMI	CTAG	2 cut(s)	387, 555
StyD4I	CCNGG	3 cut(s)	232, 653, 777
StyI	CCWWGG	3 cut(s)	48, 192, 762
TaaI	ACNGT	4 cut(s)	136, 563, 701, 740
TaqI	TCGA	4 cut(s)	17, 110, 201, 280
TasI	AATT	1 cut(s)	472
TfiI	GAWTC	1 cut(s)	294
TscAI	CASTG	3 cut(s)	214, 586, 685
TseFI	GTSAC	3 cut(s)	205, 377, 632
TseI	GCWGC	2 cut(s)	287, 720
Tsp45I	GTSAC	3 cut(s)	205, 377, 632
TspDTI	ATGAA	1 cut(s)	52
TspRI	CASTG	3 cut(s)	214, 586, 685
VpaK11BI	GGWCC	1 cut(s)	212
XceI	RCATGY	1 cut(s)	612
XmnI	GAANNNNTTC	1 cut(s)	35
XspI	CTAG	2 cut(s)	387, 555

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