Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0009406

Physical Location & Seq

Genomic Coordinates Reverse (-)

1905519 .. 1906712

Gene Structure 1194 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00078670.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 645 bp

ATGACCACTACGACTACGTCGATAATGTCGTCCGATCACGACCAGGTCGAGTCCAGCTACGGCTACTGCCGAGGAGTGGACCGCGGCGACGATATTGTACGGACGGCGATGAGGGGGAGCGGAGGAGATCGGAGCGTCGAGAAGTGGTTGTGTTACTCGGAGCTGGTCAAGGAGGAGGTTGAGTTAACGGCGACGAGGACGAGCTCGGCGAGCACGTGTTGCAGCGTCGGTGATGATCGGAAAAGTCATCAGGATCGACGGCTGGCGTTGAAGCTTGACTATGAGGAGGTCTTGAATGCTTGGTCTGATAAGGGATCGCTGTACATTAAAACCGAAGACGGCGAGCTGCCGCTGCAAACGGTGCCGGACTTGCTTCAGGATCAGCTCTTTCACCGCCTCCAGGGATTCCACTTCCAATTTGAATTGATCAATGTCAATAAGCTTACGCTTTTAGGGGTGCCTGAGGAGGGTGGGAGTGGGAGTGGTGGCGGTAGCTTGGAGAGGAAGATTCAAAGACAGGCGAGTTTATTGAGATACAAGCGGAAAAGGGAGAACAGGCTGTTTTCTAAGCGGATTCGGTATCAAGTTCGGAAGCTAAATGCCGAAGAAACGACCCCGTATGAAGGGTCGGTTTGTGAAGAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006605 GO:0006810 GO:0006886 GO:0008104 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0015031 GO:0015833 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0033036 GO:0033365 GO:0034613 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045036 GO:0045184 GO:0046907 GO:0050789 GO:0050794 GO:0051171 GO:0051179 GO:0051234 GO:0051252 GO:0051641 GO:0051649 GO:0060255 GO:0065007 GO:0070727 GO:0071702 GO:0071705 GO:0072594 GO:0072596 GO:0072598 GO:0080090 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CCT

Protein Analysis

214

Amino Acids

24.27

Weight (kDa)

5.91

Isoelectric Point (pI)

38.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CCT	PF06203	172 - 203	3.7e-09	CCT motif

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: OG0009406)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G14370
fragaria_vesca	FvH4_6g52200 FvH4_6g52200 FvH4_6g52200
malus_domestica	MD09G1019800.v1.1 MD17G1020400.v1.1
prunus_persica	Prupe.3G296700_v2.0.a1
pyrus_communis	pycom111g01640 pycom17g01700
rosa_chinensis	RchiOBHm_Chr2g0173701
rosa_laevigata	RLG00000022215
rosa_multiflora	Rmu_co8469107.1_g000001 Rmu_sc0002538.1_g000006
rosa_roxburghii	Rroxscaffold_2G00078670 Rroxscaffold_2G00078690
rosa_rugosa	Rorug02G0572400
rosa_samantha	Rh2AG651300 Rh2BG661800 Rh2CG626700 Rh2CG626800 Rh2DG677000
rosa_wichuraiana	Rw2G053450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	361, 457
AccBSI	CCGCTC	1 cut(s)	120
AccII	CGCG	1 cut(s)	84
AciI	CCGC	8 cut(s)	82, 84, 120, 350, 394, 489, 541, 571
AclWI	GGATC	3 cut(s)	261, 322, 387
AcuI	CTGAAG	1 cut(s)	359
AcvI	CACGTG	1 cut(s)	216
AfaI	GTAC	2 cut(s)	99, 323
AfiI	CCNNNNNNNGG	4 cut(s)	76, 400, 467, 623
AflIII	ACRYGT	1 cut(s)	215
AgsI	TTSAA	4 cut(s)	271, 295, 422, 512
AjnI	CCWGG	2 cut(s)	42, 399
AluBI	AGCT	9 cut(s)	57, 163, 204, 274, 346, 385, 442, 495, 595
AluI	AGCT	9 cut(s)	57, 163, 204, 274, 346, 385, 442, 495, 595
Alw21I	GWGCWC	2 cut(s)	206, 215
AlwI	GGATC	3 cut(s)	261, 322, 387
ApeKI	GCWGC	3 cut(s)	222, 346, 352
AspS9I	GGNCC	1 cut(s)	79
AsuHPI	GGTGA	2 cut(s)	242, 383
AvaII	GGWCC	1 cut(s)	79
AxyI	CCTNAGG	1 cut(s)	462
BanI	GGYRCC	2 cut(s)	361, 457
BanII	GRGCYC	1 cut(s)	206
BbrPI	CACGTG	1 cut(s)	216
BbsI	GAAGAC	1 cut(s)	342
Bbv12I	GWGCWC	2 cut(s)	206, 215
BbvI	GCAGC	3 cut(s)	234, 333, 339
BceAI	ACGGC	5 cut(s)	76, 120, 204, 275, 355
BciT130I	CCWGG	2 cut(s)	44, 401
BclI	TGATCA	1 cut(s)	426
BisI	GCNGC	5 cut(s)	85, 223, 347, 350, 353
BlsI	GCNGC	5 cut(s)	86, 224, 348, 351, 354
Bme1390I	CCNGG	2 cut(s)	44, 401
Bme18I	GGWCC	1 cut(s)	79
BmgT120I	GGNCC	1 cut(s)	79
BmiI	GGNNCC	2 cut(s)	363, 459
BmrFI	CCNGG	2 cut(s)	44, 401
BpiI	GAAGAC	1 cut(s)	342
BpmI	CTGGAG	1 cut(s)	383
BsaAI	YACGTR	1 cut(s)	216
BsaJI	CCNNGG	3 cut(s)	70, 82, 400
BsaXI	ACNNNNNCTCC	4 cut(s)	167, 197, 466, 496
Bsc4I	CCNNNNNNNGG	4 cut(s)	76, 400, 467, 623
Bse21I	CCTNAGG	1 cut(s)	462
BseBI	CCWGG	2 cut(s)	44, 401
BseDI	CCNNGG	3 cut(s)	70, 82, 400
BseLI	CCNNNNNNNGG	4 cut(s)	76, 400, 467, 623
BseMII	CTCAG	1 cut(s)	453
BseRI	GAGGAG	5 cut(s)	87, 138, 188, 299, 479
BseXI	GCAGC	3 cut(s)	234, 333, 339
Bsh1236I	CGCG	1 cut(s)	84
BshNI	GGYRCC	2 cut(s)	361, 457
BsiHKAI	GWGCWC	2 cut(s)	206, 215
BsiSI	CCGG	1 cut(s)	365
BslI	CCNNNNNNNGG	4 cut(s)	76, 400, 467, 623
BsmI	GAATGC	1 cut(s)	301
Bsp1286I	GDGCHC	2 cut(s)	206, 215
Bsp1407I	TGTACA	1 cut(s)	321
Bsp143I	GATC	7 cut(s)	34, 127, 235, 253, 314, 379, 426
BspACI	CCGC	8 cut(s)	82, 84, 120, 350, 394, 489, 541, 571
BspCNI	CTCAG	1 cut(s)	454
BspFNI	CGCG	1 cut(s)	84
BspLI	GGNNCC	2 cut(s)	363, 459
BspPI	GGATC	3 cut(s)	261, 322, 387
BspT107I	GGYRCC	2 cut(s)	361, 457
BsrBI	CCGCTC	1 cut(s)	120
BsrGI	TGTACA	1 cut(s)	321
BssECI	CCNNGG	3 cut(s)	70, 82, 400
BssMI	GATC	7 cut(s)	34, 127, 235, 253, 314, 379, 426
Bst2UI	CCWGG	2 cut(s)	44, 401
Bst4CI	ACNGT	1 cut(s)	361
Bst6I	CTCTTC	1 cut(s)	633
BstAPI	GCANNNNNTGC	2 cut(s)	219, 361
BstAUI	TGTACA	1 cut(s)	321
BstBAI	YACGTR	1 cut(s)	216
BstC8I	GCNNGC	3 cut(s)	211, 264, 344
BstDEI	CTNAG	2 cut(s)	462, 567
BstDSI	CCRYGG	1 cut(s)	82
BstFNI	CGCG	1 cut(s)	84
BstKTI	GATC	7 cut(s)	37, 130, 238, 256, 317, 382, 429
BstMBI	GATC	7 cut(s)	34, 127, 235, 253, 314, 379, 426
BstMWI	GCNNNNNNNGC	5 cut(s)	210, 219, 352, 361, 370
BstNI	CCWGG	2 cut(s)	44, 401
BstSCI	CCNGG	2 cut(s)	42, 399
BstUI	CGCG	1 cut(s)	84
BstV1I	GCAGC	3 cut(s)	234, 333, 339
BstV2I	GAAGAC	1 cut(s)	342
Bsu36I	CCTNAGG	1 cut(s)	462
BtgI	CCRYGG	1 cut(s)	82
BtgZI	GCGATG	1 cut(s)	122
Cac8I	GCNNGC	3 cut(s)	211, 264, 344
Cfr13I	GGNCC	1 cut(s)	79
Cfr42I	CCGCGG	1 cut(s)	85
CseI	GACGC	2 cut(s)	124, 214
CsiI	ACCWGGT	1 cut(s)	42
Csp6I	GTAC	2 cut(s)	98, 322
CviQI	GTAC	2 cut(s)	98, 322
DdeI	CTNAG	2 cut(s)	462, 567
DpnI	GATC	7 cut(s)	36, 129, 237, 255, 316, 381, 428
DpnII	GATC	7 cut(s)	34, 127, 235, 253, 314, 379, 426
Eam1104I	CTCTTC	1 cut(s)	633
EarI	CTCTTC	1 cut(s)	633
Ecl136II	GAGCTC	1 cut(s)	204
Eco24I	GRGCYC	1 cut(s)	206
Eco47I	GGWCC	1 cut(s)	79
Eco53kI	GAGCTC	1 cut(s)	204
Eco57I	CTGAAG	1 cut(s)	359
Eco72I	CACGTG	1 cut(s)	216
Eco81I	CCTNAGG	1 cut(s)	462
EcoICRI	GAGCTC	1 cut(s)	204
EcoRII	CCWGG	2 cut(s)	42, 399
EcoT38I	GRGCYC	1 cut(s)	206
FaiI	YATR	2 cut(s)	282, 621
FbaI	TGATCA	1 cut(s)	426
Fnu4HI	GCNGC	5 cut(s)	85, 223, 347, 350, 353
FriOI	GRGCYC	1 cut(s)	206
Fsp4HI	GCNGC	5 cut(s)	85, 223, 347, 350, 353
GluI	GCNGC	5 cut(s)	85, 223, 347, 350, 353
GsuI	CTGGAG	1 cut(s)	383
HapII	CCGG	1 cut(s)	365
HgaI	GACGC	2 cut(s)	124, 214
HincII	GTYRAC	1 cut(s)	186
HindII	GTYRAC	1 cut(s)	186
HindIII	AAGCTT	2 cut(s)	272, 440
HinfI	GANTC	4 cut(s)	50, 405, 508, 574
HpaI	GTTAAC	1 cut(s)	186
HpaII	CCGG	1 cut(s)	365
HphI	GGTGA	2 cut(s)	242, 383
Hpy166II	GTNNAC	2 cut(s)	79, 186
Hpy188I	TCNGA	6 cut(s)	34, 132, 160, 240, 307, 591
Hpy188III	TCNNGA	5 cut(s)	38, 139, 251, 292, 377
Hpy8I	GTNNAC	2 cut(s)	79, 186
Hpy99I	CGWCG	6 cut(s)	22, 92, 140, 196, 230, 261
HpyAV	CCTTC	1 cut(s)	617
HpyCH4III	ACNGT	1 cut(s)	361
HpyCH4IV	ACGT	2 cut(s)	17, 215
HpyCH4V	TGCA	2 cut(s)	222, 355
HpyF10VI	GCNNNNNNNGC	5 cut(s)	210, 219, 352, 361, 370
HpyF3I	CTNAG	2 cut(s)	462, 567
HpySE526I	ACGT	2 cut(s)	17, 215
Ksp22I	TGATCA	1 cut(s)	426
KspAI	GTTAAC	1 cut(s)	186
KspI	CCGCGG	1 cut(s)	85
Kzo9I	GATC	7 cut(s)	34, 127, 235, 253, 314, 379, 426
LmnI	GCTCC	3 cut(s)	117, 132, 160
Lsp1109I	GCAGC	3 cut(s)	234, 333, 339
MabI	ACCWGGT	1 cut(s)	42
MaeII	ACGT	2 cut(s)	17, 215
MaeIII	GTNAC	1 cut(s)	152
MalI	GATC	7 cut(s)	36, 129, 237, 255, 316, 381, 428
MbiI	CCGCTC	1 cut(s)	120
MboI	GATC	7 cut(s)	34, 127, 235, 253, 314, 379, 426
MboII	GAAGA	3 cut(s)	347, 517, 617
MhlI	GDGCHC	2 cut(s)	206, 215
MluCI	AATT	2 cut(s)	416, 422
MlyI	GAGTC	1 cut(s)	59
MseI	TTAA	2 cut(s)	185, 327
MspA1I	CMGCKG	2 cut(s)	84, 352
MspI	CCGG	1 cut(s)	365
MspR9I	CCNGG	2 cut(s)	44, 401
Mva1269I	GAATGC	1 cut(s)	301
MvaI	CCWGG	2 cut(s)	44, 401
MvnI	CGCG	1 cut(s)	84
MwoI	GCNNNNNNNGC	5 cut(s)	210, 219, 352, 361, 370
NdeII	GATC	7 cut(s)	34, 127, 235, 253, 314, 379, 426
NlaIV	GGNNCC	2 cut(s)	363, 459
NmeAIII	GCCGAG	2 cut(s)	95, 185
PcsI	WCGNNNNNNNCGW	5 cut(s)	17, 26, 45, 206, 212
PctI	GAATGC	1 cut(s)	301
PfeI	GAWTC	3 cut(s)	405, 508, 574
PflFI	GACNNNGTC	2 cut(s)	16, 44
PkrI	GCNGC	5 cut(s)	86, 224, 348, 351, 354
PleI	GAGTC	1 cut(s)	58
PmaCI	CACGTG	1 cut(s)	216
PmlI	CACGTG	1 cut(s)	216
PpsI	GAGTC	1 cut(s)	58
Ppu21I	YACGTR	1 cut(s)	216
Psp124BI	GAGCTC	1 cut(s)	206
Psp6I	CCWGG	2 cut(s)	42, 399
PspCI	CACGTG	1 cut(s)	216
PspGI	CCWGG	2 cut(s)	42, 399
PspN4I	GGNNCC	2 cut(s)	363, 459
PspPI	GGNCC	1 cut(s)	79
PsyI	GACNNNGTC	2 cut(s)	16, 44
RsaI	GTAC	2 cut(s)	99, 323
RsaNI	GTAC	2 cut(s)	98, 322
SacI	GAGCTC	1 cut(s)	206
SacII	CCGCGG	1 cut(s)	85
SaqAI	TTAA	2 cut(s)	185, 327
SatI	GCNGC	5 cut(s)	85, 223, 347, 350, 353
Sau3AI	GATC	7 cut(s)	34, 127, 235, 253, 314, 379, 426
Sau96I	GGNCC	1 cut(s)	79
SchI	GAGTC	1 cut(s)	59
ScrFI	CCNGG	2 cut(s)	44, 401
SduI	GDGCHC	2 cut(s)	206, 215
SexAI	ACCWGGT	1 cut(s)	42
Sfr303I	CCGCGG	1 cut(s)	85
SgrBI	CCGCGG	1 cut(s)	85
SinI	GGWCC	1 cut(s)	79
Sse9I	AATT	2 cut(s)	416, 422
SsiI	CCGC	8 cut(s)	82, 84, 120, 350, 394, 489, 541, 571
SstI	GAGCTC	1 cut(s)	206
StyD4I	CCNGG	2 cut(s)	42, 399
TaaI	ACNGT	1 cut(s)	361
TaiI	ACGT	2 cut(s)	20, 218
TaqI	TCGA	4 cut(s)	20, 48, 138, 256
TasI	AATT	2 cut(s)	416, 422
TatI	WGTACW	1 cut(s)	321
TauI	GCSGC	2 cut(s)	87, 352
TfiI	GAWTC	3 cut(s)	405, 508, 574
Tru1I	TTAA	2 cut(s)	185, 327
Tru9I	TTAA	2 cut(s)	185, 327
TseI	GCWGC	3 cut(s)	222, 346, 352
TspDTI	ATGAA	1 cut(s)	636
TspGWI	ACGGA	1 cut(s)	115
Tth111I	GACNNNGTC	2 cut(s)	16, 44
VpaK11BI	GGWCC	1 cut(s)	79

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