Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0004539

Physical Location & Seq

Genomic Coordinates Reverse (-)

60197691 .. 60198362

Gene Structure 672 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG384600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 672 bp

ATGATCACTGCAGGTACCCAAGAAGAGGCAGCTCACGCCTATGATATTGCAGCGATAGAATACAGAGGCATAAACGCTGTGACCAACTTTGACTTGAGCACATACATAAGATGGCTCAGACCAGGACCCAGTTCACTTGTTGCTAATTCTCAAGAACAACCAAAACCAACTATTGCTGACTCCAACAGCAACAATCCAAGCAAGGAAGAGAGACCAATGTCAATCTTTAATCCGAATAACTCATTCGCAGTAGAGGACATAGACACCACAAGAACTAGGGGCATTTTCCAAAGACAGAATACTATGCCCCCCATCAGTCCTACTTGCACCCCTAAGTCATCTAATTCCCCAACCGCACTCAGCCTCCTCCTCAAATCCTCCATATTCAAGGAGCTGGTGGAGAAGAATTTGAATGATGAAACCGAAGAAAGTGACGATGAGAAGAGTGATATAATAAAGAACTTGCTCCCGCAGACAAACGGGACTGAAAATCTGAAGAGAATTTTGTATGAAGGGATTCACAACATCCCTTTTTCGTGTTCATCCAACAGGGATATGTTGCCTGCTTTAGAGTCCCGGGAGAAGAACATGCTACCATTATGCAATTCGAGGGGGCAATCCCTTTGGAATAATGGTGCCATCAACATGTTCTCATCCGCTGATTTCAGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0006109 GO:0006110 GO:0006140 GO:0006355 GO:0006629 GO:0006638 GO:0006639 GO:0006641 GO:0008150 GO:0008152 GO:0008610 GO:0009058 GO:0009743 GO:0009744 GO:0009889 GO:0009891 GO:0009893 GO:0009894 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0019219 GO:0019220 GO:0019222 GO:0019432 GO:0030808 GO:0030811 GO:0031323 GO:0031326 GO:0031329 GO:0034285 GO:0042221 GO:0042325 GO:0043467 GO:0043470 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0045017 GO:0046460 GO:0046463 GO:0046486 GO:0048518 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051174 GO:0051193 GO:0051196 GO:0051252 GO:0060255 GO:0062012 GO:0065007 GO:0071704 GO:0080090 GO:0097159 GO:0140110 GO:1900371 GO:1900542 GO:1901363 GO:1901576 GO:1901700 GO:1901957 GO:1901959 GO:1903506 GO:1903578 GO:2000112 GO:2001141 GO:2001169

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AP2

Protein Analysis

223

Amino Acids

24.8

Weight (kDa)

4.97

Isoelectric Point (pI)

54.1

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0004539)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g31880 FvH4_6g49200
malus_domestica	MD09G1047600.v1.1 MD09G1047800.v1.1 MD13G1078300.v1.1 MD17G1047900.v1.1
prunus_persica	Prupe.1G268800_v2.0.a1 Prupe.3G271200_v2.0.a1 Prupe.3G271400_v2.0.a1
pyrus_communis	pycom17g04250 pycom17g04270
rosa_chinensis	RchiOBHm_Chr2g0169071 RchiOBHm_Chr4g0440541
rosa_laevigata	RLG00000006169 RLG00000021831
rosa_multiflora	Rmu_co8472159.1_g000001 Rmu_sc0016635.1_g000002 Rmu_sc0037701.1_g000001
rosa_roxburghii	Rroxscaffold_2G00082490 Rroxscaffold_3G00226840 Rroxscaffold_5G00381370
rosa_rugosa	Rorug02G0536600 Rorug04G0326600
rosa_samantha	Rh2AG608500 Rh2BG621300 Rh2CG590100 Rh2DG632000 Rh4CG405600 Rh4DG384600
rosa_wichuraiana	Rw2G050450 Rw4G032380 Rw4G032480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	2
Acc65I	GGTACC	1 cut(s)	14
AccB1I	GGYRCC	2 cut(s)	14, 635
AciI	CCGC	3 cut(s)	354, 470, 657
AcsI	RAATTY	2 cut(s)	406, 501
AcuI	CTGAAG	1 cut(s)	515
AfaI	GTAC	1 cut(s)	16
AfiI	CCNNNNNNNGG	1 cut(s)	25
AflIII	ACRYGT	1 cut(s)	645
AgsI	TTSAA	2 cut(s)	388, 412
AjnI	CCWGG	1 cut(s)	121
AluBI	AGCT	3 cut(s)	32, 394, 669
AluI	AGCT	3 cut(s)	32, 394, 669
Alw21I	GWGCWC	1 cut(s)	101
Alw26I	GTCTC	1 cut(s)	205
Ama87I	CYCGRG	1 cut(s)	576
ApeKI	GCWGC	2 cut(s)	29, 50
ApoI	RAATTY	2 cut(s)	406, 501
Asp700I	GAANNNNTTC	1 cut(s)	516
Asp718I	GGTACC	1 cut(s)	14
AspS9I	GGNCC	1 cut(s)	125
AsuC2I	CCSGG	2 cut(s)	577, 578
AvaI	CYCGRG	1 cut(s)	576
AvaII	GGWCC	1 cut(s)	125
BanI	GGYRCC	2 cut(s)	14, 635
Bbv12I	GWGCWC	1 cut(s)	101
BbvI	GCAGC	2 cut(s)	41, 62
BccI	CCATC	3 cut(s)	105, 320, 647
BciT130I	CCWGG	1 cut(s)	123
BclI	TGATCA	1 cut(s)	3
BcnI	CCSGG	2 cut(s)	577, 578
BcoDI	GTCTC	1 cut(s)	205
BfaI	CTAG	1 cut(s)	276
BfmI	CTRYAG	1 cut(s)	9
BfuAI	ACCTGC	1 cut(s)	2
BisI	GCNGC	2 cut(s)	30, 51
BlsI	GCNGC	2 cut(s)	31, 52
Bme1390I	CCNGG	3 cut(s)	123, 577, 578
Bme18I	GGWCC	1 cut(s)	125
BmeT110I	CYCGRG	1 cut(s)	576
BmgT120I	GGNCC	1 cut(s)	125
BmiI	GGNNCC	3 cut(s)	16, 127, 637
BmrFI	CCNGG	3 cut(s)	123, 577, 578
BmrI	ACTGGG	1 cut(s)	123
BmuI	ACTGGG	1 cut(s)	123
BoxI	GACNNNNGTC	1 cut(s)	217
BpuEI	CTTGAG	2 cut(s)	115, 135
BpuMI	CCSGG	2 cut(s)	577, 578
BsaI	GGTCTC	1 cut(s)	205
BsaJI	CCNNGG	1 cut(s)	576
BsaXI	ACNNNNNCTCC	2 cut(s)	348, 378
Bsc4I	CCNNNNNNNGG	1 cut(s)	25
Bse1I	ACTGG	1 cut(s)	129
BseBI	CCWGG	1 cut(s)	123
BseDI	CCNNGG	1 cut(s)	576
BseGI	GGATG	3 cut(s)	525, 542, 653
BseLI	CCNNNNNNNGG	1 cut(s)	25
BseMII	CTCAG	2 cut(s)	130, 373
BseNI	ACTGG	1 cut(s)	129
BseRI	GAGGAG	2 cut(s)	356, 359
BseXI	GCAGC	2 cut(s)	41, 62
BshNI	GGYRCC	2 cut(s)	14, 635
BsiHKAI	GWGCWC	1 cut(s)	101
BsiHKCI	CYCGRG	1 cut(s)	576
BsiSI	CCGG	1 cut(s)	577
BslFI	GGGAC	2 cut(s)	496, 559
BslI	CCNNNNNNNGG	1 cut(s)	25
BsmAI	GTCTC	1 cut(s)	205
BsmFI	GGGAC	2 cut(s)	496, 559
Bso31I	GGTCTC	1 cut(s)	205
BsoBI	CYCGRG	1 cut(s)	576
Bsp1286I	GDGCHC	1 cut(s)	101
Bsp143I	GATC	1 cut(s)	3
BspACI	CCGC	3 cut(s)	354, 470, 657
BspCNI	CTCAG	2 cut(s)	129, 372
BspLI	GGNNCC	3 cut(s)	16, 127, 637
BspMAI	CTGCAG	1 cut(s)	13
BspMI	ACCTGC	1 cut(s)	2
BspT107I	GGYRCC	2 cut(s)	14, 635
BspTNI	GGTCTC	1 cut(s)	205
BsrI	ACTGG	1 cut(s)	129
BssECI	CCNNGG	1 cut(s)	576
BssMI	GATC	1 cut(s)	3
Bst2UI	CCWGG	1 cut(s)	123
Bst6I	CTCTTC	4 cut(s)	18, 201, 437, 491
BstC8I	GCNNGC	1 cut(s)	564
BstDEI	CTNAG	3 cut(s)	116, 333, 359
BstF5I	GGATG	3 cut(s)	525, 542, 653
BstKTI	GATC	1 cut(s)	6
BstMAI	GTCTC	1 cut(s)	205
BstMBI	GATC	1 cut(s)	3
BstMWI	GCNNNNNNNGC	1 cut(s)	35
BstNI	CCWGG	1 cut(s)	123
BstNSI	RCATGY	2 cut(s)	592, 649
BstPAI	GACNNNNGTC	1 cut(s)	217
BstSCI	CCNGG	3 cut(s)	121, 575, 576
BstSFI	CTRYAG	1 cut(s)	9
BstV1I	GCAGC	2 cut(s)	41, 62
BtsCI	GGATG	3 cut(s)	525, 542, 653
BtsI	GCAGTG	1 cut(s)	6
BtsIMutI	CAGTG	1 cut(s)	6
BveI	ACCTGC	1 cut(s)	2
Cac8I	GCNNGC	1 cut(s)	564
Cfr13I	GGNCC	1 cut(s)	125
Cfr9I	CCCGGG	1 cut(s)	576
Csp6I	GTAC	1 cut(s)	15
CviAII	CATG	2 cut(s)	589, 646
CviJI	RGCY	5 cut(s)	32, 115, 363, 394, 669
CviKI_1	RGCY	5 cut(s)	32, 115, 363, 394, 669
CviQI	GTAC	1 cut(s)	15
DdeI	CTNAG	3 cut(s)	116, 333, 359
DpnI	GATC	1 cut(s)	5
DpnII	GATC	1 cut(s)	3
Eam1104I	CTCTTC	4 cut(s)	18, 201, 437, 491
EarI	CTCTTC	4 cut(s)	18, 201, 437, 491
Eco31I	GGTCTC	1 cut(s)	205
Eco47I	GGWCC	1 cut(s)	125
Eco57I	CTGAAG	1 cut(s)	515
Eco88I	CYCGRG	1 cut(s)	576
EcoO109I	RGGNCCY	1 cut(s)	125
EcoRII	CCWGG	1 cut(s)	121
FaeI	CATG	2 cut(s)	592, 649
FaqI	GGGAC	2 cut(s)	496, 559
FatI	CATG	2 cut(s)	588, 645
FauI	CCCGC	1 cut(s)	477
FbaI	TGATCA	1 cut(s)	3
Fnu4HI	GCNGC	2 cut(s)	30, 51
FokI	GGATG	3 cut(s)	512, 529, 640
Fsp4HI	GCNGC	2 cut(s)	30, 51
FspBI	CTAG	1 cut(s)	276
GluI	GCNGC	2 cut(s)	30, 51
HapII	CCGG	1 cut(s)	577
Hin1II	CATG	2 cut(s)	592, 649
HinfI	GANTC	3 cut(s)	179, 517, 572
HpaII	CCGG	1 cut(s)	577
Hpy166II	GTNNAC	1 cut(s)	134
Hpy188I	TCNGA	3 cut(s)	119, 234, 495
Hpy188III	TCNNGA	1 cut(s)	152
Hpy8I	GTNNAC	1 cut(s)	134
HpyAV	CCTTC	1 cut(s)	506
HpyCH4V	TGCA	4 cut(s)	11, 50, 327, 603
HpyF10VI	GCNNNNNNNGC	1 cut(s)	35
HpyF3I	CTNAG	3 cut(s)	116, 333, 359
Hsp92II	CATG	2 cut(s)	592, 649
KpnI	GGTACC	1 cut(s)	18
Ksp22I	TGATCA	1 cut(s)	3
Kzo9I	GATC	1 cut(s)	3
LmnI	GCTCC	2 cut(s)	391, 471
LpnPI	CCDG	7 cut(s)	108, 135, 142, 380, 535, 576, 590
Lsp1109I	GCAGC	2 cut(s)	41, 62
MaeI	CTAG	1 cut(s)	276
MaeIII	GTNAC	2 cut(s)	79, 431
MalI	GATC	1 cut(s)	5
MboI	GATC	1 cut(s)	3
MboII	GAAGA	7 cut(s)	35, 218, 415, 437, 454, 508, 595
MhlI	GDGCHC	1 cut(s)	101
MluCI	AATT	5 cut(s)	145, 343, 406, 501, 604
MlyI	GAGTC	2 cut(s)	173, 581
MmeI	TCCRAC	2 cut(s)	207, 570
MnlI	CCTC	8 cut(s)	19, 59, 247, 374, 377, 380, 388, 603
MroXI	GAANNNNTTC	1 cut(s)	516
MseI	TTAA	1 cut(s)	228
MslI	CAYNNNNRTG	2 cut(s)	39, 644
MspA1I	CMGCKG	2 cut(s)	659, 669
MspI	CCGG	1 cut(s)	577
MspR9I	CCNGG	3 cut(s)	123, 577, 578
MvaI	CCWGG	1 cut(s)	123
MwoI	GCNNNNNNNGC	1 cut(s)	35
NciI	CCSGG	2 cut(s)	577, 578
NdeII	GATC	1 cut(s)	3
NlaIII	CATG	2 cut(s)	592, 649
NlaIV	GGNNCC	3 cut(s)	16, 127, 637
NmuCI	GTSAC	2 cut(s)	79, 431
NspI	RCATGY	2 cut(s)	592, 649
PciI	ACATGT	1 cut(s)	645
PdmI	GAANNNNTTC	1 cut(s)	516
PfeI	GAWTC	1 cut(s)	517
PkrI	GCNGC	2 cut(s)	31, 52
PleI	GAGTC	2 cut(s)	173, 580
PpsI	GAGTC	2 cut(s)	173, 580
PpuMI	RGGWCCY	1 cut(s)	125
PscI	ACATGT	1 cut(s)	645
PshAI	GACNNNNGTC	1 cut(s)	217
Psp5II	RGGWCCY	1 cut(s)	125
Psp6I	CCWGG	1 cut(s)	121
PspGI	CCWGG	1 cut(s)	121
PspN4I	GGNNCC	3 cut(s)	16, 127, 637
PspPI	GGNCC	1 cut(s)	125
PspPPI	RGGWCCY	1 cut(s)	125
PstI	CTGCAG	1 cut(s)	13
PvuII	CAGCTG	1 cut(s)	669
RsaI	GTAC	1 cut(s)	16
RsaNI	GTAC	1 cut(s)	15
RseI	CAYNNNNRTG	2 cut(s)	39, 644
SaqAI	TTAA	1 cut(s)	228
SatI	GCNGC	2 cut(s)	30, 51
Sau3AI	GATC	1 cut(s)	3
Sau96I	GGNCC	1 cut(s)	125
SchI	GAGTC	2 cut(s)	173, 581
ScrFI	CCNGG	3 cut(s)	123, 577, 578
SduI	GDGCHC	1 cut(s)	101
SetI	ASST	4 cut(s)	16, 34, 396, 671
SfcI	CTRYAG	1 cut(s)	9
SinI	GGWCC	1 cut(s)	125
SmaI	CCCGGG	1 cut(s)	578
SmiMI	CAYNNNNRTG	2 cut(s)	39, 644
SmlI	CTYRAG	2 cut(s)	94, 150
SmoI	CTYRAG	2 cut(s)	94, 150
Sse9I	AATT	5 cut(s)	145, 343, 406, 501, 604
SsiI	CCGC	3 cut(s)	354, 470, 657
SspMI	CTAG	1 cut(s)	276
StyD4I	CCNGG	3 cut(s)	121, 575, 576
TaqI	TCGA	1 cut(s)	608
TasI	AATT	5 cut(s)	145, 343, 406, 501, 604
TfiI	GAWTC	1 cut(s)	517
Tru1I	TTAA	1 cut(s)	228
Tru9I	TTAA	1 cut(s)	228
TscAI	CASTG	1 cut(s)	13
TseFI	GTSAC	2 cut(s)	79, 431
TseI	GCWGC	2 cut(s)	29, 50
Tsp45I	GTSAC	2 cut(s)	79, 431
TspDTI	ATGAA	3 cut(s)	432, 525, 531
TspMI	CCCGGG	1 cut(s)	576
TspRI	CASTG	1 cut(s)	13
VpaK11BI	GGWCC	1 cut(s)	125
XapI	RAATTY	2 cut(s)	406, 501
XceI	RCATGY	2 cut(s)	592, 649
XmaI	CCCGGG	1 cut(s)	576
XmnI	GAANNNNTTC	1 cut(s)	516
XspI	CTAG	1 cut(s)	276

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