Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0002213

Physical Location & Seq

Genomic Coordinates Reverse (-)

89807410 .. 89808465

Gene Structure 1056 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG523400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1056 bp

ATGGAAGATGAAGCATCAACCATGATTAATTCAAGTGCCCTTAAAAATAATAACAGCGTTGCTGTGCCGGGAGAAACGTCGGGTTCAAACGACACCAATTTTGAACTTCGCCCAACTAAGCGTTTGAGGCATGACAATGATGTCTCACTTGCAAAATTCAAAGGAGTGGTGCCACAACAAAATGGTCATTGGGGTGCACAGATATACGCAAACCACCAAAGAATTTGGCTTGGCACGTTCAAATCAGAGAACGAAGCGGCCATGGCTTACGATAGTGCTGCAATCAAGCTTCGAAAAGGTAACGAGTCCCATAGAAATTTCCCGTGGACCAACCTGACCATTCAAGAGCCTGATTTCCAAAACCATCTCACCACAGAAGAAGTAATTAAAATGATTAGGGACGGTTCGTATCCATCCAAATTTGGTGCCTTCGTTAGGTCACAAACACAGTCTCAGAGTGAGGAAGTTGGAAAGGGTACTCCCAGCCAAATTACGGTACATGGGAATGGACAAGTACTGTGTAGGCAACTATTTCAAAAGGAATTGACACCAAGCGATGTGGGTAAGCTTAATAGGCTTGTGATACCGAAGAAATATGCTGTTAAGTATTTTCCTTGTATTTGTGAGACTGTGGAAGAAAATGGGGTTGACGATGTTGAGCTAGTTTTCTATGACAAGGTCATGAGGGCATGGAAATTTAGGTATTGCTATTGGAAGAGTAGTCAAAGTTTTGTCTTCACAAGGGGTTGGAATCGGTTTGTGAAGGAAAACAGCTTAAAGGCAAATGATGTGATCACATTCTATACATGTGAGAGTGCTGAGTTAATAAGAGATGAAAGTGGAGAAGTTACTACTACATTTTCCTTAATTGATGTAATGCATAGTGAGGCAGAAAACAACAAATGTTTAGTTGAGAAGGAGGGGAAACTGGAACTAAATCTGAGCGGAAATAGCAGCTACAAATTGCAAGAAGGTGAATGTAAACATGGTGAAGAAAATAAGGCATCCATGGTGGAGGAAAAAGGAGTTAGGCTCTTTGGTGTGAATATTAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AP2 B3

Protein Analysis

351

Amino Acids

39.81

Weight (kDa)

6.13

Isoelectric Point (pI)

38.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AP2	PF00847	52 - 99	1.7e-06	AP2 domain
B3	PF02362	178 - 271	2.8e-23	B3 DNA binding domain

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

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

Orthologous Genes (Group: OG0002213)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G50680 AT1G51120
fragaria_vesca	FvH4_3g44200 FvH4_5g30960 FvH4_5g33680
malus_domestica	MD02G1009000.v1.1 MD03G1016500.v1.1 MD11G1017200.v1.1 MD15G1154300.v1.1
prunus_persica	Prupe.6G015000_v2.0.a1 Prupe.7G261000_v2.0.a1 Prupe.7G261000_v2.0.a1 Prupe.7G261000_v2.0.a1 Prupe.7G261000_v2.0.a1
pyrus_communis	pycom03g01420
rosa_chinensis	RchiOBHm_Chr5g0046591 RchiOBHm_Chr5g0080541 RchiOBHm_Chr7g0232691
rosa_laevigata	RLG00000001316 RLG00000034419 RLG00000036866
rosa_multiflora	Rmu_sc0000359.1_g000010 Rmu_sc0002147.1_g000014 Rmu_sc0003878.1_g000030
rosa_roxburghii	Rroxscaffold_1G00002850 Rroxscaffold_1G00034770 Rroxscaffold_5G00381100
rosa_rugosa	Rorug05G0229700 Rorug05G0469700
rosa_samantha	Rh5AG310200 Rh5AG523400 Rh5BG318500 Rh5BG545400 Rh5CG344200 Rh5CG568600 Rh5DG328900 Rh5DG555600 Rh7AG430500 Rh7CG449300
rosa_wichuraiana	Rw0G023150 Rw5G028920 Rw5G048570 Rw7G035560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	140
AccB1I	GGYRCC	2 cut(s)	169, 425
AccBSI	CCGCTC	1 cut(s)	945
AciI	CCGC	2 cut(s)	257, 945
AcoI	YGGCCR	1 cut(s)	258
AcsI	RAATTY	5 cut(s)	155, 222, 316, 419, 695
AfaI	GTAC	3 cut(s)	478, 498, 516
AfiI	CCNNNNNNNGG	2 cut(s)	435, 493
AflIII	ACRYGT	1 cut(s)	806
AgsI	TTSAA	7 cut(s)	33, 87, 104, 160, 241, 344, 536
AluBI	AGCT	5 cut(s)	289, 568, 661, 774, 957
AluI	AGCT	5 cut(s)	289, 568, 661, 774, 957
Alw21I	GWGCWC	1 cut(s)	199
Alw26I	GTCTC	3 cut(s)	148, 456, 620
Alw44I	GTGCAC	1 cut(s)	195
AoxI	GGCC	1 cut(s)	258
ApaLI	GTGCAC	1 cut(s)	195
ApeKI	GCWGC	2 cut(s)	278, 954
ApoI	RAATTY	5 cut(s)	155, 222, 316, 419, 695
ArsI	GACNNNNNNTTYG	2 cut(s)	83, 115
AseI	ATTAAT	2 cut(s)	27, 1050
AspS9I	GGNCC	1 cut(s)	327
AsuC2I	CCSGG	1 cut(s)	69
AsuHPI	GGTGA	3 cut(s)	361, 986, 1001
AsuII	TTCGAA	1 cut(s)	292
AvaII	GGWCC	1 cut(s)	327
BaeGI	GKGCMC	2 cut(s)	40, 199
BanI	GGYRCC	2 cut(s)	169, 425
BbsI	GAAGAC	1 cut(s)	727
Bbv12I	GWGCWC	1 cut(s)	199
BbvI	GCAGC	2 cut(s)	265, 966
BccI	CCATC	2 cut(s)	372, 421
BcgI	CGANNNNNNTGC	2 cut(s)	260, 294
BciVI	GTATCC	1 cut(s)	420
BclI	TGATCA	1 cut(s)	792
BcnI	CCSGG	1 cut(s)	69
BcoDI	GTCTC	3 cut(s)	148, 456, 620
BfaI	CTAG	1 cut(s)	662
BfuI	GTATCC	1 cut(s)	420
BisI	GCNGC	3 cut(s)	258, 279, 955
BlsI	GCNGC	3 cut(s)	259, 280, 956
BmcAI	AGTACT	1 cut(s)	516
Bme1390I	CCNGG	1 cut(s)	69
Bme18I	GGWCC	1 cut(s)	327
BmgT120I	GGNCC	1 cut(s)	327
BmiI	GGNNCC	2 cut(s)	171, 427
BmrFI	CCNGG	1 cut(s)	69
BmsI	GCATC	2 cut(s)	23, 1013
BpiI	GAAGAC	1 cut(s)	727
BplI	GAGNNNNNCTC	2 cut(s)	1017, 1049
Bpu14I	TTCGAA	1 cut(s)	292
BpuMI	CCSGG	1 cut(s)	69
BsaJI	CCNNGG	3 cut(s)	261, 323, 1008
Bsc4I	CCNNNNNNNGG	2 cut(s)	435, 493
Bse1I	ACTGG	1 cut(s)	933
BseDI	CCNNGG	3 cut(s)	261, 323, 1008
BseGI	GGATG	2 cut(s)	413, 1004
BseLI	CCNNNNNNNGG	2 cut(s)	435, 493
BseMII	CTCAG	3 cut(s)	467, 810, 932
BseNI	ACTGG	1 cut(s)	933
BseSI	GKGCMC	2 cut(s)	40, 199
BseXI	GCAGC	2 cut(s)	265, 966
BseYI	CCCAGC	1 cut(s)	482
BshFI	GGCC	1 cut(s)	260
BshNI	GGYRCC	2 cut(s)	169, 425
BsiHKAI	GWGCWC	1 cut(s)	199
BsiSI	CCGG	1 cut(s)	68
BslFI	GGGAC	2 cut(s)	292, 413
BslI	CCNNNNNNNGG	2 cut(s)	435, 493
BsmAI	GTCTC	3 cut(s)	148, 456, 620
BsmFI	GGGAC	2 cut(s)	292, 413
BsnI	GGCC	1 cut(s)	260
Bsp119I	TTCGAA	1 cut(s)	292
Bsp1286I	GDGCHC	2 cut(s)	40, 199
Bsp143I	GATC	1 cut(s)	792
Bsp19I	CCATGG	2 cut(s)	261, 1008
BspACI	CCGC	2 cut(s)	257, 945
BspANI	GGCC	1 cut(s)	260
BspCNI	CTCAG	3 cut(s)	466, 811, 933
BspHI	TCATGA	1 cut(s)	681
BspLI	GGNNCC	2 cut(s)	171, 427
BspT104I	TTCGAA	1 cut(s)	292
BspT107I	GGYRCC	2 cut(s)	169, 425
BsrBI	CCGCTC	1 cut(s)	945
BsrI	ACTGG	1 cut(s)	933
BssECI	CCNNGG	3 cut(s)	261, 323, 1008
BssMI	GATC	1 cut(s)	792
BssT1I	CCWWGG	2 cut(s)	261, 1008
Bst4CI	ACNGT	5 cut(s)	404, 450, 496, 519, 631
Bst6I	CTCTTC	1 cut(s)	710
BstBI	TTCGAA	1 cut(s)	292
BstDEI	CTNAG	4 cut(s)	117, 453, 819, 941
BstDSI	CCRYGG	3 cut(s)	261, 323, 1008
BstENI	CCTNNNNNAGG	1 cut(s)	433
BstF5I	GGATG	2 cut(s)	413, 1004
BstKTI	GATC	1 cut(s)	795
BstMAI	GTCTC	3 cut(s)	148, 456, 620
BstMBI	GATC	1 cut(s)	792
BstMWI	GCNNNNNNNGC	4 cut(s)	127, 263, 574, 951
BstNSI	RCATGY	1 cut(s)	810
BstSCI	CCNGG	1 cut(s)	67
BstSLI	GKGCMC	2 cut(s)	40, 199
BstV1I	GCAGC	2 cut(s)	265, 966
BstV2I	GAAGAC	1 cut(s)	727
BsuI	GTATCC	1 cut(s)	420
BsuRI	GGCC	1 cut(s)	260
BtgI	CCRYGG	3 cut(s)	261, 323, 1008
BtgZI	GCGATG	1 cut(s)	570
BtsCI	GGATG	2 cut(s)	413, 1004
CciI	TCATGA	1 cut(s)	681
Cfr13I	GGNCC	1 cut(s)	327
Csp6I	GTAC	3 cut(s)	477, 497, 515
CspCI	CAANNNNNGTGG	2 cut(s)	540, 575
CviAII	CATG	9 cut(s)	22, 131, 262, 500, 682, 690, 807, 986, 1009
CviQI	GTAC	3 cut(s)	477, 497, 515
DdeI	CTNAG	4 cut(s)	117, 453, 819, 941
DpnI	GATC	1 cut(s)	794
DpnII	GATC	1 cut(s)	792
DrdI	GACNNNNNNGTC	1 cut(s)	140
DseDI	GACNNNNNNGTC	1 cut(s)	140
EaeI	YGGCCR	1 cut(s)	258
Eam1104I	CTCTTC	1 cut(s)	710
EarI	CTCTTC	1 cut(s)	710
Eco130I	CCWWGG	2 cut(s)	261, 1008
Eco47I	GGWCC	1 cut(s)	327
EcoNI	CCTNNNNNAGG	1 cut(s)	433
EcoT14I	CCWWGG	2 cut(s)	261, 1008
EcoT22I	ATGCAT	1 cut(s)	882
ErhI	CCWWGG	2 cut(s)	261, 1008
FaeI	CATG	9 cut(s)	25, 134, 265, 503, 685, 693, 810, 989, 1012
FaqI	GGGAC	2 cut(s)	292, 413
FatI	CATG	9 cut(s)	21, 130, 261, 499, 681, 689, 806, 985, 1008
FbaI	TGATCA	1 cut(s)	792
Fnu4HI	GCNGC	3 cut(s)	258, 279, 955
FokI	GGATG	2 cut(s)	400, 991
Fsp4HI	GCNGC	3 cut(s)	258, 279, 955
FspBI	CTAG	1 cut(s)	662
GluI	GCNGC	3 cut(s)	258, 279, 955
GsaI	CCCAGC	1 cut(s)	486
HaeIII	GGCC	1 cut(s)	260
HapII	CCGG	1 cut(s)	68
Hin1II	CATG	9 cut(s)	25, 134, 265, 503, 685, 693, 810, 989, 1012
HincII	GTYRAC	1 cut(s)	649
HindII	GTYRAC	1 cut(s)	649
HindIII	AAGCTT	2 cut(s)	287, 566
HinfI	GANTC	2 cut(s)	305, 751
HpaII	CCGG	1 cut(s)	68
HphI	GGTGA	3 cut(s)	361, 986, 1001
Hpy166II	GTNNAC	4 cut(s)	197, 327, 649, 983
Hpy188I	TCNGA	3 cut(s)	247, 456, 942
Hpy188III	TCNNGA	2 cut(s)	344, 682
Hpy8I	GTNNAC	4 cut(s)	197, 327, 649, 983
Hpy99I	CGWCG	1 cut(s)	82
HpyAV	CCTTC	4 cut(s)	439, 757, 910, 965
HpyCH4III	ACNGT	5 cut(s)	404, 450, 496, 519, 631
HpyCH4IV	ACGT	2 cut(s)	77, 236
HpyCH4V	TGCA	5 cut(s)	152, 197, 281, 880, 967
HpyF10VI	GCNNNNNNNGC	4 cut(s)	127, 263, 574, 951
HpyF3I	CTNAG	4 cut(s)	117, 453, 819, 941
HpySE526I	ACGT	2 cut(s)	77, 236
Hsp92II	CATG	9 cut(s)	25, 134, 265, 503, 685, 693, 810, 989, 1012
Ksp22I	TGATCA	1 cut(s)	792
Kzo9I	GATC	1 cut(s)	792
LpnPI	CCDG	5 cut(s)	81, 347, 363, 496, 914
Lsp1109I	GCAGC	2 cut(s)	265, 966
LweI	GCATC	2 cut(s)	23, 1013
MaeI	CTAG	1 cut(s)	662
MaeII	ACGT	2 cut(s)	77, 236
MaeIII	GTNAC	3 cut(s)	299, 438, 847
MalI	GATC	1 cut(s)	794
MbiI	CCGCTC	1 cut(s)	945
MboI	GATC	1 cut(s)	792
MboII	GAAGA	7 cut(s)	17, 389, 601, 647, 727, 727, 1004
MhlI	GDGCHC	2 cut(s)	40, 199
MlyI	GAGTC	1 cut(s)	314
MmeI	TCCRAC	2 cut(s)	448, 728
MnlI	CCTC	6 cut(s)	120, 454, 678, 880, 913, 1009
Mph1103I	ATGCAT	1 cut(s)	882
MslI	CAYNNNNRTG	3 cut(s)	135, 192, 504
MspI	CCGG	1 cut(s)	68
MspR9I	CCNGG	1 cut(s)	69
MwoI	GCNNNNNNNGC	4 cut(s)	127, 263, 574, 951
NciI	CCSGG	1 cut(s)	69
NcoI	CCATGG	2 cut(s)	261, 1008
NdeII	GATC	1 cut(s)	792
NlaIII	CATG	9 cut(s)	25, 134, 265, 503, 685, 693, 810, 989, 1012
NlaIV	GGNNCC	2 cut(s)	171, 427
NmuCI	GTSAC	1 cut(s)	438
NsiI	ATGCAT	1 cut(s)	882
NspI	RCATGY	1 cut(s)	810
NspV	TTCGAA	1 cut(s)	292
PacI	TTAATTAA	1 cut(s)	1054
PagI	TCATGA	1 cut(s)	681
PciI	ACATGT	1 cut(s)	806
PfeI	GAWTC	1 cut(s)	751
PflFI	GACNNNGTC	1 cut(s)	677
PkrI	GCNGC	3 cut(s)	259, 280, 956
PleI	GAGTC	1 cut(s)	313
PpsI	GAGTC	1 cut(s)	313
PscI	ACATGT	1 cut(s)	806
PshBI	ATTAAT	2 cut(s)	27, 1050
PspFI	CCCAGC	1 cut(s)	482
PspN4I	GGNNCC	2 cut(s)	171, 427
PspPI	GGNCC	1 cut(s)	327
PsyI	GACNNNGTC	1 cut(s)	677
RsaI	GTAC	3 cut(s)	478, 498, 516
RsaNI	GTAC	3 cut(s)	477, 497, 515
RseI	CAYNNNNRTG	3 cut(s)	135, 192, 504
SatI	GCNGC	3 cut(s)	258, 279, 955
Sau3AI	GATC	1 cut(s)	792
Sau96I	GGNCC	1 cut(s)	327
ScaI	AGTACT	1 cut(s)	516
SchI	GAGTC	1 cut(s)	314
ScrFI	CCNGG	1 cut(s)	69
SduI	GDGCHC	2 cut(s)	40, 199
SfaNI	GCATC	2 cut(s)	23, 1013
SfuI	TTCGAA	1 cut(s)	292
SinI	GGWCC	1 cut(s)	327
SmiMI	CAYNNNNRTG	3 cut(s)	135, 192, 504
SsiI	CCGC	2 cut(s)	257, 945
SspI	AATATT	1 cut(s)	1048
SspMI	CTAG	1 cut(s)	662
StyD4I	CCNGG	1 cut(s)	67
StyI	CCWWGG	2 cut(s)	261, 1008
TaaI	ACNGT	5 cut(s)	404, 450, 496, 519, 631
TaiI	ACGT	2 cut(s)	80, 239
TaqI	TCGA	1 cut(s)	292
TatI	WGTACW	1 cut(s)	514
TauI	GCSGC	1 cut(s)	260
TfiI	GAWTC	1 cut(s)	751
TseFI	GTSAC	1 cut(s)	438
TseI	GCWGC	2 cut(s)	278, 954
Tsp45I	GTSAC	1 cut(s)	438
TspDTI	ATGAA	2 cut(s)	24, 849
Tth111I	GACNNNGTC	1 cut(s)	677
VneI	GTGCAC	1 cut(s)	195
VpaK11BI	GGWCC	1 cut(s)	327
VspI	ATTAAT	2 cut(s)	27, 1050
XagI	CCTNNNNNAGG	1 cut(s)	433
XapI	RAATTY	5 cut(s)	155, 222, 316, 419, 695
XceI	RCATGY	1 cut(s)	810
XspI	CTAG	1 cut(s)	662
ZrmI	AGTACT	1 cut(s)	516
Zsp2I	ATGCAT	1 cut(s)	882

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