Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0006037

Physical Location & Seq

Genomic Coordinates Reverse (-)

11598901 .. 11599689

Gene Structure 789 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG128100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGGCGGAGGAGAGGTCGACTGGGGTAGTGAAGTGGTTCAATGACACCAAGGGTTTCGGCTTCATCACCCCTGACAACAACACCGAAGATCTGTTCGTCCATCAATCCTCGATCAAATCCGACGGCTTCCGCACCGTCGCCGAGGGCGACGCCGTTGAGTTTCTGATCGCCGTCGGCGAGGACGGCAAGACCAAGGCCGTCGATGTCACTGGTCCGAACGGCGCGCCTCTGCCGGGGAAGGAGAGTTTTGCTCGGTCCGGTGGCCGTGGCGGTGGCGGTCGAGACGCTGCGGGATTCGGCGGTGCGTGGAGAGGTGGAGATCGCCGTAACGGCGGCGGAGGCGGCGGGTGTTATACTTGCGGCGATACTGGTCACATGGCTAGGGATTGCAATCGCGGTGGGAATGGAGGCGGTGGAGGCCGCGGTGGTGGTGATGGATGCTTTACTTGCGGAGGGTATGGACACATGGCAAGGAATTGTCCTAATGGGAACAGCGGCGGTGGTGGCGGTGGCCGTGGTGGTGAGGGTTGCTATAAGTGTGGCGATTTTGGCCATTTGGCTAGGGACTGTTTCAATGGAGCCTCCGTTGGCGGAGGCGGAGGCGGTGGTGCATGTTATACCTGTGGGGAGGTTGGTCACATGGCAAGGGATTGCAGCAGGGGAGGGGGTGGCGGTGGACGCAGTGGCGGTAGGTATGGCTACAGTTCTGGATCTGGTGGCGGCGGCAATAGCTGTTACAACTGTGGGCAGGCTGGGCATTTTGCCAAGGAGTGTCCAAACCAGGCTTGA

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

25.7

Weight (kDa)

7.46

Isoelectric Point (pI)

36.79

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	116 - 130	2.9e-06	Zinc knuckle
zf-CCHC	PF00098	146 - 162	7.3e-06	Zinc knuckle
zf-CCHC	PF00098	176 - 191	7e-06	Zinc knuckle
zf-CCHC	PF00098	204 - 219	1.2e-07	Zinc knuckle
zf-CCHC	PF00098	244 - 260	7.9e-08	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)
AccI	GTMKAC	1 cut(s)	17
AccII	CGCG	3 cut(s)	224, 396, 423
AclWI	GGATC	1 cut(s)	718
AcoI	YGGCCR	3 cut(s)	262, 511, 550
AcyI	GRCGYC	1 cut(s)	150
AfiI	CCNNNNNNNGG	1 cut(s)	233
AgsI	TTSAA	2 cut(s)	40, 574
AjnI	CCWGG	1 cut(s)	780
AluBI	AGCT	1 cut(s)	732
AluI	AGCT	1 cut(s)	732
Alw26I	GTCTC	1 cut(s)	276
AlwI	GGATC	1 cut(s)	718
AoxI	GGCC	5 cut(s)	195, 262, 418, 511, 550
ApeKI	GCWGC	2 cut(s)	287, 654
AscI	GGCGCGCC	1 cut(s)	222
Asp700I	GAANNNNTTC	1 cut(s)	35
AspLEI	GCGC	2 cut(s)	224, 226
AspS9I	GGNCC	2 cut(s)	212, 255
AsuC2I	CCSGG	1 cut(s)	234
AsuHPI	GGTGA	3 cut(s)	58, 443, 533
AvaII	GGWCC	2 cut(s)	212, 255
BalI	TGGCCA	1 cut(s)	552
BbvI	GCAGC	2 cut(s)	274, 666
BccI	CCATC	2 cut(s)	108, 428
BciT130I	CCWGG	1 cut(s)	782
BcnI	CCSGG	1 cut(s)	234
BcoDI	GTCTC	1 cut(s)	276
BfaI	CTAG	2 cut(s)	381, 561
BfmI	CTRYAG	1 cut(s)	700
BglI	GCCNNNNNGGC	1 cut(s)	330
BglII	AGATCT	1 cut(s)	88
BisI	GCNGC	9 cut(s)	288, 334, 343, 361, 421, 496, 655, 721, 724
BlsI	GCNGC	9 cut(s)	289, 335, 344, 362, 422, 497, 656, 722, 725
Bme1390I	CCNGG	2 cut(s)	234, 782
Bme18I	GGWCC	2 cut(s)	212, 255
BmgT120I	GGNCC	2 cut(s)	212, 255
BmiI	GGNNCC	1 cut(s)	580
BmrFI	CCNGG	2 cut(s)	234, 782
BmrI	ACTGGG	1 cut(s)	30
BmsI	GCATC	1 cut(s)	428
BmuI	ACTGGG	1 cut(s)	30
BplI	GAGNNNNNCTC	2 cut(s)	235, 267
BpuMI	CCSGG	1 cut(s)	234
BsaBI	GATNNNNATC	1 cut(s)	390
BsaHI	GRCGYC	1 cut(s)	150
BsaJI	CCNNGG	8 cut(s)	48, 141, 192, 233, 265, 421, 514, 765
BsaWI	WCCGGW	1 cut(s)	257
BsaXI	ACNNNNNCTCC	3 cut(s)	29, 570, 600
Bsc4I	CCNNNNNNNGG	1 cut(s)	233
Bse1I	ACTGG	3 cut(s)	25, 214, 373
Bse8I	GATNNNNATC	1 cut(s)	390
BseBI	CCWGG	1 cut(s)	782
BseDI	CCNNGG	8 cut(s)	48, 141, 192, 233, 265, 421, 514, 765
BseGI	GGATG	1 cut(s)	443
BseJI	GATNNNNATC	1 cut(s)	390
BseLI	CCNNNNNNNGG	1 cut(s)	233
BseNI	ACTGG	3 cut(s)	25, 214, 373
BsePI	GCGCGC	1 cut(s)	222
BseRI	GAGGAG	1 cut(s)	23
BseXI	GCAGC	2 cut(s)	274, 666
BseYI	CCCAGC	1 cut(s)	752
Bsh1236I	CGCG	3 cut(s)	224, 396, 423
Bsh1285I	CGRYCG	1 cut(s)	280
BshFI	GGCC	5 cut(s)	197, 264, 420, 513, 552
BsiEI	CGRYCG	1 cut(s)	280
BsiSI	CCGG	2 cut(s)	233, 258
BslFI	GGGAC	1 cut(s)	578
BslI	CCNNNNNNNGG	1 cut(s)	233
BsmAI	GTCTC	1 cut(s)	276
BsmBI	CGTCTC	1 cut(s)	276
BsmFI	GGGAC	1 cut(s)	578
BsnI	GGCC	5 cut(s)	197, 264, 420, 513, 552
Bsp143I	GATC	5 cut(s)	88, 111, 165, 319, 710
BspANI	GGCC	5 cut(s)	197, 264, 420, 513, 552
BspFNI	CGCG	3 cut(s)	224, 396, 423
BspLI	GGNNCC	1 cut(s)	580
BspPI	GGATC	1 cut(s)	718
BsrI	ACTGG	3 cut(s)	25, 214, 373
BssECI	CCNNGG	8 cut(s)	48, 141, 192, 233, 265, 421, 514, 765
BssHII	GCGCGC	1 cut(s)	222
BssMI	GATC	5 cut(s)	88, 111, 165, 319, 710
BssNI	GRCGYC	1 cut(s)	150
BssT1I	CCWWGG	3 cut(s)	48, 192, 765
Bst2UI	CCWGG	1 cut(s)	782
Bst4CI	ACNGT	4 cut(s)	136, 569, 704, 743
BstACI	GRCGYC	1 cut(s)	150
BstC8I	GCNNGC	2 cut(s)	224, 750
BstDSI	CCRYGG	3 cut(s)	265, 421, 514
BstF5I	GGATG	1 cut(s)	443
BstFNI	CGCG	3 cut(s)	224, 396, 423
BstHHI	GCGC	2 cut(s)	224, 226
BstKTI	GATC	5 cut(s)	91, 114, 168, 322, 713
BstMAI	GTCTC	1 cut(s)	276
BstMBI	GATC	5 cut(s)	88, 111, 165, 319, 710
BstMCI	CGRYCG	1 cut(s)	280
BstNI	CCWGG	1 cut(s)	782
BstNSI	RCATGY	1 cut(s)	615
BstSCI	CCNGG	2 cut(s)	232, 780
BstSFI	CTRYAG	1 cut(s)	700
BstUI	CGCG	3 cut(s)	224, 396, 423
BstV1I	GCAGC	2 cut(s)	274, 666
BstX2I	RGATCY	2 cut(s)	88, 710
BstYI	RGATCY	2 cut(s)	88, 710
BsuRI	GGCC	5 cut(s)	197, 264, 420, 513, 552
BtgI	CCRYGG	3 cut(s)	265, 421, 514
BtsCI	GGATG	1 cut(s)	443
BtsI	GCAGTG	1 cut(s)	688
BtsIMutI	CAGTG	2 cut(s)	207, 688
Cac8I	GCNNGC	2 cut(s)	224, 750
CfoI	GCGC	2 cut(s)	224, 226
Cfr13I	GGNCC	2 cut(s)	212, 255
Cfr42I	CCGCGG	1 cut(s)	424
CpoI	CGGWCCG	1 cut(s)	255
CseI	GACGC	3 cut(s)	158, 293, 687
CspCI	CAANNNNNGTGG	2 cut(s)	379, 414
CspI	CGGWCCG	1 cut(s)	255
CviAII	CATG	4 cut(s)	376, 466, 612, 640
DpnI	GATC	5 cut(s)	90, 113, 167, 321, 712
DpnII	GATC	5 cut(s)	88, 111, 165, 319, 710
EaeI	YGGCCR	3 cut(s)	262, 511, 550
EciI	GGCGGA	4 cut(s)	20, 351, 606, 612
Eco130I	CCWWGG	3 cut(s)	48, 192, 765
Eco47I	GGWCC	2 cut(s)	212, 255
EcoRII	CCWGG	1 cut(s)	780
EcoT14I	CCWWGG	3 cut(s)	48, 192, 765
ErhI	CCWWGG	3 cut(s)	48, 192, 765
Esp3I	CGTCTC	1 cut(s)	276
FaeI	CATG	4 cut(s)	379, 469, 615, 643
FaiI	YATR	9 cut(s)	354, 377, 459, 467, 534, 613, 618, 641, 696
FaqI	GGGAC	1 cut(s)	578
FatI	CATG	4 cut(s)	375, 465, 611, 639
FauI	CCCGC	2 cut(s)	283, 338
FblI	GTMKAC	1 cut(s)	17
Fnu4HI	GCNGC	9 cut(s)	288, 334, 343, 361, 421, 496, 655, 721, 724
FokI	GGATG	1 cut(s)	450
Fsp4HI	GCNGC	9 cut(s)	288, 334, 343, 361, 421, 496, 655, 721, 724
FspBI	CTAG	2 cut(s)	381, 561
GlaI	GCGC	2 cut(s)	223, 225
GluI	GCNGC	9 cut(s)	288, 334, 343, 361, 421, 496, 655, 721, 724
GsaI	CCCAGC	1 cut(s)	756
HaeIII	GGCC	5 cut(s)	197, 264, 420, 513, 552
HapII	CCGG	2 cut(s)	233, 258
HgaI	GACGC	3 cut(s)	158, 293, 687
HhaI	GCGC	2 cut(s)	224, 226
Hin1I	GRCGYC	1 cut(s)	150
Hin1II	CATG	4 cut(s)	379, 469, 615, 643
Hin6I	GCGC	2 cut(s)	222, 224
HinP1I	GCGC	2 cut(s)	222, 224
HincII	GTYRAC	1 cut(s)	18
HindII	GTYRAC	1 cut(s)	18
HinfI	GANTC	1 cut(s)	294
HpaII	CCGG	2 cut(s)	233, 258
HphI	GGTGA	3 cut(s)	58, 443, 533
Hpy166II	GTNNAC	2 cut(s)	18, 677
Hpy188I	TCNGA	3 cut(s)	121, 165, 216
Hpy188III	TCNNGA	2 cut(s)	281, 708
Hpy8I	GTNNAC	2 cut(s)	18, 677
Hpy99I	CGWCG	5 cut(s)	125, 140, 152, 176, 203
HpyAV	CCTTC	1 cut(s)	232
HpyCH4III	ACNGT	4 cut(s)	136, 569, 704, 743
HpyCH4V	TGCA	3 cut(s)	390, 611, 654
Hsp92I	GRCGYC	1 cut(s)	150
Hsp92II	CATG	4 cut(s)	379, 469, 615, 643
HspAI	GCGC	2 cut(s)	222, 224
KspI	CCGCGG	1 cut(s)	424
Kzo9I	GATC	5 cut(s)	88, 111, 165, 319, 710
LmnI	GCTCC	1 cut(s)	578
Lsp1109I	GCAGC	2 cut(s)	274, 666
LweI	GCATC	1 cut(s)	428
MaeI	CTAG	2 cut(s)	381, 561
MaeIII	GTNAC	5 cut(s)	205, 326, 371, 635, 734
MalI	GATC	5 cut(s)	90, 113, 167, 321, 712
MboI	GATC	5 cut(s)	88, 111, 165, 319, 710
MboII	GAAGA	1 cut(s)	98
MflI	RGATCY	2 cut(s)	88, 710
MlsI	TGGCCA	1 cut(s)	552
MluCI	AATT	1 cut(s)	475
MluNI	TGGCCA	1 cut(s)	552
MmeI	TCCRAC	1 cut(s)	144
Mox20I	TGGCCA	1 cut(s)	552
MroXI	GAANNNNTTC	1 cut(s)	35
MscI	TGGCCA	1 cut(s)	552
Msp20I	TGGCCA	1 cut(s)	552
MspA1I	CMGCKG	2 cut(s)	423, 495
MspI	CCGG	2 cut(s)	233, 258
MspR9I	CCNGG	2 cut(s)	234, 782
MvaI	CCWGG	1 cut(s)	782
MvnI	CGCG	3 cut(s)	224, 396, 423
NciI	CCSGG	1 cut(s)	234
NdeII	GATC	5 cut(s)	88, 111, 165, 319, 710
NlaIII	CATG	4 cut(s)	379, 469, 615, 643
NlaIV	GGNNCC	1 cut(s)	580
NmeAIII	GCCGAG	1 cut(s)	166
NmuCI	GTSAC	3 cut(s)	205, 371, 635
NspI	RCATGY	1 cut(s)	615
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
PkrI	GCNGC	9 cut(s)	289, 335, 344, 362, 422, 497, 656, 722, 725
Psp6I	CCWGG	1 cut(s)	780
PspFI	CCCAGC	1 cut(s)	752
PspGI	CCWGG	1 cut(s)	780
PspN4I	GGNNCC	1 cut(s)	580
PspPI	GGNCC	2 cut(s)	212, 255
PsuI	RGATCY	2 cut(s)	88, 710
PteI	GCGCGC	1 cut(s)	222
Rsr2I	CGGWCCG	1 cut(s)	255
RsrII	CGGWCCG	1 cut(s)	255
SacII	CCGCGG	1 cut(s)	424
SalI	GTCGAC	1 cut(s)	16
SatI	GCNGC	9 cut(s)	288, 334, 343, 361, 421, 496, 655, 721, 724
Sau3AI	GATC	5 cut(s)	88, 111, 165, 319, 710
Sau96I	GGNCC	2 cut(s)	212, 255
ScrFI	CCNGG	2 cut(s)	234, 782
SetI	ASST	6 cut(s)	17, 316, 623, 633, 695, 734
SfaNI	GCATC	1 cut(s)	428
SfcI	CTRYAG	1 cut(s)	700
Sfr303I	CCGCGG	1 cut(s)	424
SgrBI	CCGCGG	1 cut(s)	424
SgsI	GGCGCGCC	1 cut(s)	222
SinI	GGWCC	2 cut(s)	212, 255
Sse9I	AATT	1 cut(s)	475
SspMI	CTAG	2 cut(s)	381, 561
StyD4I	CCNGG	2 cut(s)	232, 780
StyI	CCWWGG	3 cut(s)	48, 192, 765
TaaI	ACNGT	4 cut(s)	136, 569, 704, 743
TaqI	TCGA	4 cut(s)	17, 110, 201, 280
TaqII	GACCGA	1 cut(s)	243
TasI	AATT	1 cut(s)	475
TauI	GCSGC	7 cut(s)	336, 345, 363, 423, 498, 723, 726
TfiI	GAWTC	1 cut(s)	294
TscAI	CASTG	2 cut(s)	214, 688
TseFI	GTSAC	3 cut(s)	205, 371, 635
TseI	GCWGC	2 cut(s)	287, 654
Tsp45I	GTSAC	3 cut(s)	205, 371, 635
TspDTI	ATGAA	1 cut(s)	52
TspGWI	ACGGA	1 cut(s)	574
TspRI	CASTG	2 cut(s)	214, 688
VpaK11BI	GGWCC	2 cut(s)	212, 255
XceI	RCATGY	1 cut(s)	615
XmiI	GTMKAC	1 cut(s)	17
XmnI	GAANNNNTTC	1 cut(s)	35
XspI	CTAG	2 cut(s)	381, 561

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