Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0003091

Physical Location & Seq

Genomic Coordinates Reverse (-)

63649762 .. 63653382

Gene Structure 3621 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG451100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 690 bp

ATGTTTCCATTGTTTTTTCAACTAGTGTTTTTGAGTTGTTTTCTATTTACAGAGAAGGAGAATCTTTCCTTGTATGGATACCCTAGTGAGCAATGGGAAGTCAACTTACCTGCTGAAGAAGTGCCTCCGGAGCTGCCAGAGCCTGCACTGGGTATCAACTTTGCAAGAGATGGTATGGCAGAAAAGGACTGGCTAGCTTTGGTTGCTGTCCACAGTGATGCATGGCTACTTTCTGTTGCCTTCTATTTTGGATCCAGATTTGGGTTTGATAAGGTTGATAGGAAGAAACTTTTTAGCATGATAAATGAACTTCCAACAATATTTGAAGTTGTGACTGGTACTGCAAAGAAGGAAGTAAAGGAGAAGCCATCTTCAAACCACGGTAGCAACAAATCCAAGTCAAACTCCAAAGCGAGAGGATCAGAATCCCAAGCAAGACATGTGGAAGTGCTGCCAGCAAAAGATGAAGATGAGGGGTTAGACGAAGATGAGGAAGACGAACATGAAGAAGAGACTTGTGGAGCTTGTGGCCGAGGCGGGCCATCTTCATTAGATGAACCCTGGATTCTGTGTGATTTCTGTGAGACGTGGTTCCACATGAAGTGTGTGAAGGTGACCCCTGCAAAAGCAAAGCAGATTAAGCAGTACAAATGCCCTTCATGCAGCAACAAGAGGGCTCGCCCAATGTAG

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:0005575 GO:0005622 GO:0005623 GO:0005634 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:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 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: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

229

Amino Acids

25.88

Weight (kDa)

5.11

Isoelectric Point (pI)

50.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Alfin	PF12165	18 - 112	2.2e-48	Alfin
PHD	PF00628	173 - 221	2.3e-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)
Acc36I	ACCTGC	1 cut(s)	118
AccIII	TCCGGA	1 cut(s)	127
AciI	CCGC	1 cut(s)	537
AclWI	GGATC	3 cut(s)	246, 259, 427
AcoI	YGGCCR	1 cut(s)	529
AcuI	CTGAAG	1 cut(s)	135
AfaI	GTAC	2 cut(s)	340, 647
AfiI	CCNNNNNNNGG	2 cut(s)	149, 261
AflIII	ACRYGT	1 cut(s)	439
AgsI	TTSAA	3 cut(s)	20, 326, 375
AhlI	ACTAGT	1 cut(s)	22
AjiI	CACGTC	1 cut(s)	588
AjnI	CCWGG	1 cut(s)	560
AluBI	AGCT	3 cut(s)	133, 197, 524
AluI	AGCT	3 cut(s)	133, 197, 524
Alw26I	GTCTC	2 cut(s)	506, 578
AlwI	GGATC	3 cut(s)	246, 259, 427
AlwNI	CAGNNNCTG	1 cut(s)	143
Aor13HI	TCCGGA	1 cut(s)	127
AoxI	GGCC	2 cut(s)	529, 539
ApeKI	GCWGC	3 cut(s)	133, 451, 663
AspS9I	GGNCC	1 cut(s)	539
AsuHPI	GGTGA	1 cut(s)	625
AsuNHI	GCTAGC	1 cut(s)	193
BaeI	ACNNNNGTAYC	2 cut(s)	70, 103
BamHI	GGATCC	1 cut(s)	251
BanII	GRGCYC	1 cut(s)	679
BarI	GAAGNNNNNNTAC	2 cut(s)	90, 122
BbsI	GAAGAC	1 cut(s)	501
BbvI	GCAGC	3 cut(s)	120, 438, 675
BccI	CCATC	3 cut(s)	164, 376, 550
BciT130I	CCWGG	1 cut(s)	562
BciVI	GTATCC	1 cut(s)	71
BcoDI	GTCTC	2 cut(s)	506, 578
BcuI	ACTAGT	1 cut(s)	22
BfaI	CTAG	3 cut(s)	23, 84, 194
BfuAI	ACCTGC	1 cut(s)	118
BfuI	GTATCC	1 cut(s)	71
BisI	GCNGC	3 cut(s)	134, 452, 664
BlsI	GCNGC	3 cut(s)	135, 453, 665
Bme1390I	CCNGG	1 cut(s)	562
BmgBI	CACGTC	1 cut(s)	588
BmgT120I	GGNCC	1 cut(s)	539
BmiI	GGNNCC	2 cut(s)	253, 593
BmrFI	CCNGG	1 cut(s)	562
BmrI	ACTGGG	1 cut(s)	158
BmsI	GCATC	1 cut(s)	208
BmtI	GCTAGC	1 cut(s)	197
BmuI	ACTGGG	1 cut(s)	158
BpiI	GAAGAC	1 cut(s)	501
BsaBI	GATNNNNATC	1 cut(s)	424
BsaJI	CCNNGG	3 cut(s)	379, 532, 560
BsaWI	WCCGGW	1 cut(s)	127
Bsc4I	CCNNNNNNNGG	2 cut(s)	149, 261
Bse1I	ACTGG	3 cut(s)	153, 194, 340
Bse3DI	GCAATG	1 cut(s)	98
Bse8I	GATNNNNATC	1 cut(s)	424
BseAI	TCCGGA	1 cut(s)	127
BseBI	CCWGG	1 cut(s)	562
BseDI	CCNNGG	3 cut(s)	379, 532, 560
BseJI	GATNNNNATC	1 cut(s)	424
BseLI	CCNNNNNNNGG	2 cut(s)	149, 261
BseMI	GCAATG	1 cut(s)	98
BseNI	ACTGG	3 cut(s)	153, 194, 340
BseXI	GCAGC	3 cut(s)	120, 438, 675
BsgI	GTGCAG	1 cut(s)	129
BshFI	GGCC	2 cut(s)	531, 541
BsiSI	CCGG	1 cut(s)	128
BslI	CCNNNNNNNGG	2 cut(s)	149, 261
BsmAI	GTCTC	2 cut(s)	506, 578
BsmBI	CGTCTC	1 cut(s)	578
BsnI	GGCC	2 cut(s)	531, 541
Bsp1286I	GDGCHC	1 cut(s)	679
Bsp13I	TCCGGA	1 cut(s)	127
Bsp143I	GATC	2 cut(s)	251, 419
BspACI	CCGC	1 cut(s)	537
BspANI	GGCC	2 cut(s)	531, 541
BspEI	TCCGGA	1 cut(s)	127
BspLI	GGNNCC	2 cut(s)	253, 593
BspMI	ACCTGC	1 cut(s)	118
BspOI	GCTAGC	1 cut(s)	197
BspPI	GGATC	3 cut(s)	246, 259, 427
BsrDI	GCAATG	1 cut(s)	98
BsrI	ACTGG	3 cut(s)	153, 194, 340
BssECI	CCNNGG	3 cut(s)	379, 532, 560
BssMI	GATC	2 cut(s)	251, 419
Bst2UI	CCWGG	1 cut(s)	562
Bst4CI	ACNGT	2 cut(s)	215, 383
Bst6I	CTCTTC	1 cut(s)	504
BstC8I	GCNNGC	5 cut(s)	144, 195, 456, 539, 679
BstDSI	CCRYGG	1 cut(s)	379
BstEII	GGTNACC	1 cut(s)	613
BstKTI	GATC	2 cut(s)	254, 422
BstMAI	GTCTC	2 cut(s)	506, 578
BstMBI	GATC	2 cut(s)	251, 419
BstMWI	GCNNNNNNNGC	5 cut(s)	130, 139, 203, 640, 660
BstNI	CCWGG	1 cut(s)	562
BstNSI	RCATGY	1 cut(s)	443
BstPI	GGTNACC	1 cut(s)	613
BstSCI	CCNGG	1 cut(s)	560
BstV1I	GCAGC	3 cut(s)	120, 438, 675
BstV2I	GAAGAC	1 cut(s)	501
BstX2I	RGATCY	1 cut(s)	251
BstYI	RGATCY	1 cut(s)	251
BsuI	GTATCC	1 cut(s)	71
BsuRI	GGCC	2 cut(s)	531, 541
BtgI	CCRYGG	1 cut(s)	379
BtrI	CACGTC	1 cut(s)	588
BtsIMutI	CAGTG	2 cut(s)	146, 220
BveI	ACCTGC	1 cut(s)	118
Cac8I	GCNNGC	5 cut(s)	144, 195, 456, 539, 679
CaiI	CAGNNNCTG	1 cut(s)	143
Cfr13I	GGNCC	1 cut(s)	539
Csp6I	GTAC	2 cut(s)	339, 646
CspCI	CAANNNNNGTGG	2 cut(s)	423, 458
CviAII	CATG	6 cut(s)	222, 298, 440, 503, 598, 660
CviQI	GTAC	2 cut(s)	339, 646
DpnI	GATC	2 cut(s)	253, 421
DpnII	GATC	2 cut(s)	251, 419
EaeI	YGGCCR	1 cut(s)	529
Eam1104I	CTCTTC	1 cut(s)	504
EarI	CTCTTC	1 cut(s)	504
Eco24I	GRGCYC	1 cut(s)	679
Eco57I	CTGAAG	1 cut(s)	135
Eco91I	GGTNACC	1 cut(s)	613
EcoO65I	GGTNACC	1 cut(s)	613
EcoRII	CCWGG	1 cut(s)	560
EcoT22I	ATGCAT	1 cut(s)	223
EcoT38I	GRGCYC	1 cut(s)	679
Esp3I	CGTCTC	1 cut(s)	578
FaeI	CATG	6 cut(s)	225, 301, 443, 506, 601, 663
FaiI	YATR	8 cut(s)	75, 176, 223, 299, 441, 504, 599, 661
FatI	CATG	6 cut(s)	221, 297, 439, 502, 597, 659
FauI	CCCGC	1 cut(s)	530
Fnu4HI	GCNGC	3 cut(s)	134, 452, 664
FriOI	GRGCYC	1 cut(s)	679
Fsp4HI	GCNGC	3 cut(s)	134, 452, 664
FspBI	CTAG	3 cut(s)	23, 84, 194
GluI	GCNGC	3 cut(s)	134, 452, 664
HaeIII	GGCC	2 cut(s)	531, 541
HapII	CCGG	1 cut(s)	128
Hin1II	CATG	6 cut(s)	225, 301, 443, 506, 601, 663
HincII	GTYRAC	1 cut(s)	103
HindII	GTYRAC	1 cut(s)	103
HinfI	GANTC	3 cut(s)	61, 425, 565
HpaII	CCGG	1 cut(s)	128
HphI	GGTGA	1 cut(s)	625
Hpy166II	GTNNAC	2 cut(s)	103, 211
Hpy188I	TCNGA	1 cut(s)	424
Hpy188III	TCNNGA	2 cut(s)	128, 255
Hpy8I	GTNNAC	2 cut(s)	103, 211
HpyAV	CCTTC	5 cut(s)	49, 250, 343, 604, 666
HpyCH4III	ACNGT	2 cut(s)	215, 383
HpyCH4IV	ACGT	1 cut(s)	587
HpyCH4V	TGCA	6 cut(s)	146, 164, 221, 344, 623, 663
HpyF10VI	GCNNNNNNNGC	5 cut(s)	130, 139, 203, 640, 660
HpySE526I	ACGT	1 cut(s)	587
Hsp92II	CATG	6 cut(s)	225, 301, 443, 506, 601, 663
Kpn2I	TCCGGA	1 cut(s)	127
Kzo9I	GATC	2 cut(s)	251, 419
LmnI	GCTCC	2 cut(s)	130, 521
Lsp1109I	GCAGC	3 cut(s)	120, 438, 675
LweI	GCATC	1 cut(s)	208
MaeI	CTAG	3 cut(s)	23, 84, 194
MaeII	ACGT	1 cut(s)	587
MaeIII	GTNAC	2 cut(s)	331, 613
MalI	GATC	2 cut(s)	253, 421
MboI	GATC	2 cut(s)	251, 419
MboII	GAAGA	9 cut(s)	128, 295, 363, 479, 497, 506, 518, 521, 537
MflI	RGATCY	1 cut(s)	251
MhlI	GDGCHC	1 cut(s)	679
MmeI	TCCRAC	1 cut(s)	338
MnlI	CCTC	6 cut(s)	135, 410, 466, 484, 527, 666
Mph1103I	ATGCAT	1 cut(s)	223
MroI	TCCGGA	1 cut(s)	127
MseI	TTAA	1 cut(s)	639
MslI	CAYNNNNRTG	1 cut(s)	216
MspI	CCGG	1 cut(s)	128
MspR9I	CCNGG	1 cut(s)	562
MvaI	CCWGG	1 cut(s)	562
MwoI	GCNNNNNNNGC	5 cut(s)	130, 139, 203, 640, 660
NdeII	GATC	2 cut(s)	251, 419
NheI	GCTAGC	1 cut(s)	193
NlaIII	CATG	6 cut(s)	225, 301, 443, 506, 601, 663
NlaIV	GGNNCC	2 cut(s)	253, 593
NmeAIII	GCCGAG	1 cut(s)	557
NmuCI	GTSAC	2 cut(s)	331, 613
NsiI	ATGCAT	1 cut(s)	223
NspI	RCATGY	1 cut(s)	443
PciI	ACATGT	1 cut(s)	439
PfeI	GAWTC	3 cut(s)	61, 425, 565
PkrI	GCNGC	3 cut(s)	135, 453, 665
PscI	ACATGT	1 cut(s)	439
Psp6I	CCWGG	1 cut(s)	560
PspEI	GGTNACC	1 cut(s)	613
PspGI	CCWGG	1 cut(s)	560
PspN4I	GGNNCC	2 cut(s)	253, 593
PspPI	GGNCC	1 cut(s)	539
PstNI	CAGNNNCTG	1 cut(s)	143
PsuI	RGATCY	1 cut(s)	251
RsaI	GTAC	2 cut(s)	340, 647
RsaNI	GTAC	2 cut(s)	339, 646
RseI	CAYNNNNRTG	1 cut(s)	216
SaqAI	TTAA	1 cut(s)	639
SatI	GCNGC	3 cut(s)	134, 452, 664
Sau3AI	GATC	2 cut(s)	251, 419
Sau96I	GGNCC	1 cut(s)	539
ScrFI	CCNGG	1 cut(s)	562
SduI	GDGCHC	1 cut(s)	679
SetI	ASST	7 cut(s)	112, 135, 199, 276, 526, 590, 615
SfaNI	GCATC	1 cut(s)	208
SmiMI	CAYNNNNRTG	1 cut(s)	216
SpeI	ACTAGT	1 cut(s)	22
SsiI	CCGC	1 cut(s)	537
SspI	AATATT	1 cut(s)	321
SspMI	CTAG	3 cut(s)	23, 84, 194
StyD4I	CCNGG	1 cut(s)	560
TaaI	ACNGT	2 cut(s)	215, 383
TaiI	ACGT	1 cut(s)	590
TatI	WGTACW	1 cut(s)	645
TfiI	GAWTC	3 cut(s)	61, 425, 565
Tru1I	TTAA	1 cut(s)	639
Tru9I	TTAA	1 cut(s)	639
TscAI	CASTG	2 cut(s)	153, 220
TseFI	GTSAC	2 cut(s)	331, 613
TseI	GCWGC	3 cut(s)	133, 451, 663
Tsp45I	GTSAC	2 cut(s)	331, 613
TspDTI	ATGAA	7 cut(s)	321, 480, 519, 537, 570, 614, 648
TspRI	CASTG	2 cut(s)	153, 220
XceI	RCATGY	1 cut(s)	443
XspI	CTAG	3 cut(s)	23, 84, 194
Zsp2I	ATGCAT	1 cut(s)	223

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