Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0003091

Physical Location & Seq

Genomic Coordinates Forward (+)

1363222 .. 1366117

Gene Structure 2896 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00157550.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 762 bp

ATGGAAGTCGGCGCTCCGTACAATCCCCGGACGGTGGAGGAGGTCTTCAGAGACTTCAAAGGCCGCAGAGCCGGCTTGCTTAAGGCCCTCACCACCGATGTCGGCTTGTTTTTTCAGCAGTGCGACCCTGAGAAGGAGAATCTTTGCCTCTATGGATTTCCAACCGAGCAGTGGGAAGTTAATTTGCCTGCAGAGGAGGTTCCTCCAGAGCTTCCAGAGCCAGCACTTGGTATCAACTTTGCCAGAGATGGGATGCAAGAAAAAGACTGGTTATCCTTGGTTGCTGTCCACAGTGATGCATGGTTACTTGCAGTGGCCTTTTACTTCGGTGCTAGGTTTCAATTTGATAAGACTGATAGGAAACGCCTTTTTAATATGATAAATGAGCTTCCAACTATATTCGAGATTGTTACAGGGACAGCCAAGAAACAAGTAAAGGAGAGGTCAACAAATTCAAATCATGGCAGCAACAAACCTAAATCAAATTCGAAGAGAGGTTCTGAGTCTCAGGGAAAGTATGCAAAGGTAATGCAAGCAAGGGAAGACTATGAGGATGGCACAGAAGATGAAGATGAGGATGAGCATGGAGAGACACTATGTGGGGCTTGTGGAGAGAACTATGCATCCGATGAATTTTGGATTTGCTGCGATGTCTGTGAGAAGTGGTTCCACGGCAAGTGTGTGAAGATCACCCCAGCAAGGGCCGAGCATATTAAGCAGTACAAATGTCCATCTTGCAGCAACAAGAGATCCCGACCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003712 GO:0003714 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006950 GO:0006970 GO:0008150 GO:0009414 GO:0009415 GO:0009628 GO:0009651 GO:0009889 GO:0009890 GO:0009892 GO:0010035 GO:0010556 GO:0010558 GO:0010605 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0035064 GO:0042221 GO:0042393 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140030 GO:0140034 GO:0140110 GO:1901363 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Alfin PHD

Protein Analysis

253

Amino Acids

28.82

Weight (kDa)

5.33

Isoelectric Point (pI)

46.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Alfin	PF12165	11 - 138	3.6e-67	Alfin
PHD	PF00628	200 - 246	4.1e-09	PHD-finger

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: OG0003091)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G42790 AT5G20510 AT5G20510
fragaria_vesca	FvH4_2g31281 FvH4_2g31281 FvH4_6g34320
malus_domestica	MD08G1069100.v1.1 MD09G1186300.v1.1 MD15G1052900.v1.1 MD17G1171200.v1.1
prunus_persica	Prupe.1G406800_v2.0.a1 Prupe.1G406800_v2.0.a1 Prupe.3G044000_v2.0.a1 Prupe.3G044000_v2.0.a1
pyrus_communis	pycom08g05690 pycom09g10350 pycom15g05060 pycom17g16870
rosa_chinensis	RchiOBHm_Chr2g0144691 RchiOBHm_Chr6g0311511 RchiOBHm_Chr7g0239581
rosa_laevigata	RLG00000006884 RLG00000010399 RLG00000020101
rosa_multiflora	Rmu_sc0000227.1_g000006 Rmu_sc0015790.1_g000007 Rmu_sc0039327.1_g000001
rosa_roxburghii	Rroxscaffold_2G00101070 Rroxscaffold_7G00157550
rosa_rugosa	Rorug02G0388800 Rorug06G0389300
rosa_samantha	Rh2BG451100 Rh6AG504100 Rh6DG506600
rosa_wichuraiana	Rw2G036050 Rw4G005730 Rw6G043900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	227
AciI	CCGC	1 cut(s)	64
AclWI	GGATC	1 cut(s)	744
AcsI	RAATTY	3 cut(s)	451, 484, 632
AcuI	CTGAAG	1 cut(s)	31
AdeI	CACNNNGTG	1 cut(s)	599
AfaI	GTAC	2 cut(s)	20, 722
AfiI	CCNNNNNNNGG	7 cut(s)	34, 133, 171, 227, 249, 699, 700
AflII	CTTAAG	1 cut(s)	80
AgsI	TTSAA	3 cut(s)	58, 341, 456
AloI	GAACNNNNNNTCC	2 cut(s)	608, 640
AluBI	AGCT	2 cut(s)	211, 388
AluI	AGCT	2 cut(s)	211, 388
Alw26I	GTCTC	3 cut(s)	45, 510, 584
AlwI	GGATC	1 cut(s)	744
AoxI	GGCC	4 cut(s)	61, 84, 315, 702
ApeKI	GCWGC	3 cut(s)	465, 645, 738
ApoI	RAATTY	3 cut(s)	451, 484, 632
Asp700I	GAANNNNTTC	1 cut(s)	665
AspLEI	GCGC	1 cut(s)	14
AspS9I	GGNCC	2 cut(s)	85, 702
AsuC2I	CCSGG	1 cut(s)	28
AsuHPI	GGTGA	2 cut(s)	82, 682
AsuII	TTCGAA	1 cut(s)	488
BbsI	GAAGAC	2 cut(s)	37, 549
BbvI	GCAGC	3 cut(s)	477, 632, 750
BccI	CCATC	3 cut(s)	242, 548, 739
BceAI	ACGGC	1 cut(s)	688
BcnI	CCSGG	1 cut(s)	28
BcoDI	GTCTC	3 cut(s)	45, 510, 584
BfaI	CTAG	1 cut(s)	333
BfmI	CTRYAG	1 cut(s)	189
BfoI	RGCGCY	1 cut(s)	15
BfrI	CTTAAG	1 cut(s)	80
BisI	GCNGC	4 cut(s)	64, 466, 646, 739
BlsI	GCNGC	4 cut(s)	65, 467, 647, 740
Bme1390I	CCNGG	1 cut(s)	28
BmgT120I	GGNCC	2 cut(s)	85, 702
BmiI	GGNNCC	2 cut(s)	201, 668
BmrFI	CCNGG	1 cut(s)	28
BmsI	GCATC	3 cut(s)	243, 286, 632
BpiI	GAAGAC	2 cut(s)	37, 549
BpmI	CTGGAG	1 cut(s)	189
Bpu14I	TTCGAA	1 cut(s)	488
BpuMI	CCSGG	1 cut(s)	28
BsaJI	CCNNGG	3 cut(s)	26, 276, 670
Bsc4I	CCNNNNNNNGG	7 cut(s)	34, 133, 171, 227, 249, 699, 700
Bse118I	RCCGGY	1 cut(s)	71
Bse1I	ACTGG	1 cut(s)	272
BseDI	CCNNGG	3 cut(s)	26, 276, 670
BseGI	GGATG	4 cut(s)	258, 559, 583, 623
BseLI	CCNNNNNNNGG	7 cut(s)	34, 133, 171, 227, 249, 699, 700
BseMII	CTCAG	3 cut(s)	120, 492, 521
BseNI	ACTGG	1 cut(s)	272
BseRI	GAGGAG	2 cut(s)	53, 209
BseXI	GCAGC	3 cut(s)	477, 632, 750
BseYI	CCCAGC	1 cut(s)	694
BshFI	GGCC	4 cut(s)	63, 86, 317, 704
BsiSI	CCGG	2 cut(s)	28, 72
BslFI	GGGAC	1 cut(s)	430
BslI	CCNNNNNNNGG	7 cut(s)	34, 133, 171, 227, 249, 699, 700
BsmAI	GTCTC	3 cut(s)	45, 510, 584
BsmFI	GGGAC	1 cut(s)	430
BsnI	GGCC	4 cut(s)	63, 86, 317, 704
Bsp119I	TTCGAA	1 cut(s)	488
Bsp143I	GATC	2 cut(s)	687, 749
BspACI	CCGC	1 cut(s)	64
BspANI	GGCC	4 cut(s)	63, 86, 317, 704
BspCNI	CTCAG	3 cut(s)	121, 493, 520
BspLI	GGNNCC	2 cut(s)	201, 668
BspMAI	CTGCAG	1 cut(s)	193
BspPI	GGATC	1 cut(s)	744
BspT104I	TTCGAA	1 cut(s)	488
BspTI	CTTAAG	1 cut(s)	80
BsrFI	RCCGGY	1 cut(s)	71
BsrI	ACTGG	1 cut(s)	272
BssAI	RCCGGY	1 cut(s)	71
BssECI	CCNNGG	3 cut(s)	26, 276, 670
BssMI	GATC	2 cut(s)	687, 749
BssT1I	CCWWGG	1 cut(s)	276
Bst4CI	ACNGT	2 cut(s)	34, 293
Bst6I	CTCTTC	1 cut(s)	485
BstAFI	CTTAAG	1 cut(s)	80
BstBI	TTCGAA	1 cut(s)	488
BstC8I	GCNNGC	5 cut(s)	73, 77, 189, 222, 534
BstDEI	CTNAG	3 cut(s)	129, 501, 507
BstDSI	CCRYGG	1 cut(s)	670
BstF5I	GGATG	4 cut(s)	258, 559, 583, 623
BstH2I	RGCGCY	1 cut(s)	15
BstHHI	GCGC	1 cut(s)	14
BstKTI	GATC	2 cut(s)	690, 752
BstMAI	GTCTC	3 cut(s)	45, 510, 584
BstMBI	GATC	2 cut(s)	687, 749
BstMWI	GCNNNNNNNGC	3 cut(s)	72, 217, 715
BstSCI	CCNGG	1 cut(s)	26
BstSFI	CTRYAG	1 cut(s)	189
BstV1I	GCAGC	3 cut(s)	477, 632, 750
BstV2I	GAAGAC	2 cut(s)	37, 549
BstX2I	RGATCY	1 cut(s)	749
BstYI	RGATCY	1 cut(s)	749
BsuRI	GGCC	4 cut(s)	63, 86, 317, 704
BtgI	CCRYGG	1 cut(s)	670
BtgZI	GCGATG	1 cut(s)	663
BtsCI	GGATG	4 cut(s)	258, 559, 583, 623
BtsI	GCAGTG	3 cut(s)	125, 176, 318
BtsIMutI	CAGTG	4 cut(s)	125, 176, 298, 318
Cac8I	GCNNGC	5 cut(s)	73, 77, 189, 222, 534
CfoI	GCGC	1 cut(s)	14
Cfr10I	RCCGGY	1 cut(s)	71
Cfr13I	GGNCC	2 cut(s)	85, 702
Csp6I	GTAC	2 cut(s)	19, 721
CviAII	CATG	3 cut(s)	300, 461, 584
CviQI	GTAC	2 cut(s)	19, 721
DdeI	CTNAG	3 cut(s)	129, 501, 507
DpnI	GATC	2 cut(s)	689, 751
DpnII	GATC	2 cut(s)	687, 749
DraIII	CACNNNGTG	1 cut(s)	599
Eam1104I	CTCTTC	1 cut(s)	485
EarI	CTCTTC	1 cut(s)	485
Eco130I	CCWWGG	1 cut(s)	276
Eco57I	CTGAAG	1 cut(s)	31
EcoO109I	RGGNCCY	1 cut(s)	85
EcoT14I	CCWWGG	1 cut(s)	276
EcoT22I	ATGCAT	2 cut(s)	301, 625
ErhI	CCWWGG	1 cut(s)	276
FaeI	CATG	3 cut(s)	303, 464, 587
FaqI	GGGAC	1 cut(s)	430
FatI	CATG	3 cut(s)	299, 460, 583
Fnu4HI	GCNGC	4 cut(s)	64, 466, 646, 739
FokI	GGATG	4 cut(s)	265, 566, 590, 610
Fsp4HI	GCNGC	4 cut(s)	64, 466, 646, 739
FspBI	CTAG	1 cut(s)	333
GlaI	GCGC	1 cut(s)	13
GluI	GCNGC	4 cut(s)	64, 466, 646, 739
GsaI	CCCAGC	1 cut(s)	698
GsuI	CTGGAG	1 cut(s)	189
HaeII	RGCGCY	1 cut(s)	15
HaeIII	GGCC	4 cut(s)	63, 86, 317, 704
HapII	CCGG	2 cut(s)	28, 72
HhaI	GCGC	1 cut(s)	14
Hin1II	CATG	3 cut(s)	303, 464, 587
Hin6I	GCGC	1 cut(s)	12
HinP1I	GCGC	1 cut(s)	12
HincII	GTYRAC	1 cut(s)	447
HindII	GTYRAC	1 cut(s)	447
HinfI	GANTC	2 cut(s)	139, 503
HpaII	CCGG	2 cut(s)	28, 72
HphI	GGTGA	2 cut(s)	82, 682
Hpy166II	GTNNAC	2 cut(s)	289, 447
Hpy188I	TCNGA	3 cut(s)	50, 502, 628
Hpy188III	TCNNGA	4 cut(s)	206, 215, 403, 753
Hpy8I	GTNNAC	2 cut(s)	289, 447
HpyAV	CCTTC	1 cut(s)	127
HpyCH4III	ACNGT	2 cut(s)	34, 293
HpyCH4V	TGCA	8 cut(s)	191, 256, 299, 311, 521, 532, 623, 738
HpyF10VI	GCNNNNNNNGC	3 cut(s)	72, 217, 715
HpyF3I	CTNAG	3 cut(s)	129, 501, 507
Hsp92II	CATG	3 cut(s)	303, 464, 587
HspAI	GCGC	1 cut(s)	12
KroI	GCCGGC	1 cut(s)	71
KroNI	GCCGGC	1 cut(s)	73
Kzo9I	GATC	2 cut(s)	687, 749
LmnI	GCTCC	1 cut(s)	19
Lsp1109I	GCAGC	3 cut(s)	477, 632, 750
LweI	GCATC	3 cut(s)	243, 286, 632
MaeI	CTAG	1 cut(s)	333
MaeIII	GTNAC	2 cut(s)	303, 409
MalI	GATC	2 cut(s)	689, 751
MboI	GATC	2 cut(s)	687, 749
MboII	GAAGA	6 cut(s)	37, 502, 554, 575, 581, 697
MflI	RGATCY	1 cut(s)	749
MluCI	AATT	5 cut(s)	181, 341, 451, 484, 632
MlyI	GAGTC	1 cut(s)	512
MmeI	TCCRAC	2 cut(s)	185, 416
Mph1103I	ATGCAT	2 cut(s)	301, 625
MroNI	GCCGGC	1 cut(s)	71
MroXI	GAANNNNTTC	1 cut(s)	665
MseI	TTAA	4 cut(s)	81, 180, 372, 714
MslI	CAYNNNNRTG	1 cut(s)	294
MspCI	CTTAAG	1 cut(s)	80
MspI	CCGG	2 cut(s)	28, 72
MspR9I	CCNGG	1 cut(s)	28
MwoI	GCNNNNNNNGC	3 cut(s)	72, 217, 715
NaeI	GCCGGC	1 cut(s)	73
NciI	CCSGG	1 cut(s)	28
NdeII	GATC	2 cut(s)	687, 749
NgoMIV	GCCGGC	1 cut(s)	71
NlaIII	CATG	3 cut(s)	303, 464, 587
NlaIV	GGNNCC	2 cut(s)	201, 668
NmeAIII	GCCGAG	1 cut(s)	730
NsiI	ATGCAT	2 cut(s)	301, 625
NspV	TTCGAA	1 cut(s)	488
PdiI	GCCGGC	1 cut(s)	73
PdmI	GAANNNNTTC	1 cut(s)	665
PfeI	GAWTC	1 cut(s)	139
PflMI	CCANNNNNTGG	1 cut(s)	227
PkrI	GCNGC	4 cut(s)	65, 467, 647, 740
PleI	GAGTC	1 cut(s)	511
PpsI	GAGTC	1 cut(s)	511
PspFI	CCCAGC	1 cut(s)	694
PspN4I	GGNNCC	2 cut(s)	201, 668
PspPI	GGNCC	2 cut(s)	85, 702
PstI	CTGCAG	1 cut(s)	193
PsuI	RGATCY	1 cut(s)	749
RsaI	GTAC	2 cut(s)	20, 722
RsaNI	GTAC	2 cut(s)	19, 721
RseI	CAYNNNNRTG	1 cut(s)	294
SaqAI	TTAA	4 cut(s)	81, 180, 372, 714
SatI	GCNGC	4 cut(s)	64, 466, 646, 739
Sau3AI	GATC	2 cut(s)	687, 749
Sau96I	GGNCC	2 cut(s)	85, 702
SchI	GAGTC	1 cut(s)	512
ScrFI	CCNGG	1 cut(s)	28
SfaNI	GCATC	3 cut(s)	243, 286, 632
SfcI	CTRYAG	1 cut(s)	189
SfuI	TTCGAA	1 cut(s)	488
SmiMI	CAYNNNNRTG	1 cut(s)	294
SmlI	CTYRAG	1 cut(s)	80
SmoI	CTYRAG	1 cut(s)	80
Sse9I	AATT	5 cut(s)	181, 341, 451, 484, 632
SsiI	CCGC	1 cut(s)	64
SspMI	CTAG	1 cut(s)	333
StyD4I	CCNGG	1 cut(s)	26
StyI	CCWWGG	1 cut(s)	276
TaaI	ACNGT	2 cut(s)	34, 293
TaqI	TCGA	2 cut(s)	402, 488
TasI	AATT	5 cut(s)	181, 341, 451, 484, 632
TatI	WGTACW	1 cut(s)	720
TauI	GCSGC	1 cut(s)	66
TfiI	GAWTC	1 cut(s)	139
Tru1I	TTAA	4 cut(s)	81, 180, 372, 714
Tru9I	TTAA	4 cut(s)	81, 180, 372, 714
TscAI	CASTG	4 cut(s)	125, 176, 298, 318
TseI	GCWGC	3 cut(s)	465, 645, 738
TspDTI	ATGAA	2 cut(s)	582, 645
TspGWI	ACGGA	1 cut(s)	6
TspRI	CASTG	4 cut(s)	125, 176, 298, 318
Van91I	CCANNNNNTGG	1 cut(s)	227
Vha464I	CTTAAG	1 cut(s)	80
XapI	RAATTY	3 cut(s)	451, 484, 632
XcmI	CCANNNNNNNNNTGG	1 cut(s)	168
XmnI	GAANNNNTTC	1 cut(s)	665
XspI	CTAG	1 cut(s)	333
Zsp2I	ATGCAT	2 cut(s)	301, 625

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