Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0003261

Physical Location & Seq

Genomic Coordinates Reverse (-)

43072287 .. 43078347

Gene Structure 6061 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG359000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 885 bp

ATGGTATACCTCAACAAAGTTAGCGGAGGTTGTGTGGCGAATATTGCGGCAAAGCTCGAGTCTATGGAACCCTGCCGAAGTGTCAAGGATAGAATTGGCTGTAGCATGATATCCAATGCAGAGAAAAGTGGATTAATATCTCCTGGGAAGAATGTATTGGTTGAACCAACTAGTGGAAATACAGGGCTCGGAATTGCTTTTGTTGCTGCTACCAAAGGGTATAAACTCATAGTGACCATGCCTGCATCCATAAATCTTGAAAGAAGGATTCTGTTACGGGCATTTGGAGCAGAGGTTGTTTTGACAGATCCAGAGAAGGGTTTGAAAGGGGCTTTAGATAAAGCTGAACAAATTGTTCTCAGCACGCCAAATTCATTTATGCTTCAACAGTTTGATAATTCTGCAAATGCAAAGATCCATTTTGATACTACCGGGCCAGAGATATGGGAGGATACCATGGGAAGTGTTGACATTTTTGTTGCTGCTATTGGAACTGGTGGTACTGTTACAGGCACTGGGCATTACCTGAAAGCGATGAACAAAGAGATAAAGGTAGTAGGTGTAGAACCAGCAGAGCGGAGTGTGATCTCCGGAGAAAATCCAGGTTACGTGCCAAGCATATTGGACGTTAATCTGCTTGATGAAGTCATCAAGGTTACGAATGATGAAGCTGTTGAAATGGCCAGGAGATTAGCATTGAAGGAAGGTTTGCTGGTTGGTATTTCATCAGGAGCTGCTGCAGCTGCTGCAATAAGTTTAGCAAGAAGACCTGAGAATGCTGGAAAGCTTATTGCGGTTGTATTTCCTAGCTTTGGTGAGAGGTATATTCCAACTGTACTCTTCCAATCCATATATGAAGATGTTCAGAAGATGCGAGGAACATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000096 GO:0000097 GO:0003674 GO:0003824 GO:0004124 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006082 GO:0006520 GO:0006534 GO:0006535 GO:0006563 GO:0006790 GO:0006807 GO:0008144 GO:0008150 GO:0008152 GO:0008652 GO:0009058 GO:0009069 GO:0009070 GO:0009314 GO:0009416 GO:0009507 GO:0009536 GO:0009579 GO:0009628 GO:0009642 GO:0009643 GO:0009987 GO:0010310 GO:0015979 GO:0016053 GO:0016740 GO:0016765 GO:0019222 GO:0019344 GO:0019752 GO:0019842 GO:0030170 GO:0031323 GO:0031977 GO:0036094 GO:0043167 GO:0043168 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044272 GO:0044281 GO:0044283 GO:0044424 GO:0044436 GO:0044444 GO:0044464 GO:0046394 GO:0048037 GO:0050662 GO:0050789 GO:0050794 GO:0050896 GO:0051193 GO:0065007 GO:0070279 GO:0071704 GO:0090322 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1901605 GO:1901607 GO:2000377

KEGG Pathways

Metabolic & Signaling

ko00270 ko00920 ko01100 ko01110 ko01120 ko01130 ko01200 ko01230 map00270 map00920 map01100 map01110 map01120 map01130 map01200 map01230

Pfam Domains

Protein Families

PALP

Protein Analysis

294

Amino Acids

31.2

Weight (kDa)

5.87

Isoelectric Point (pI)

30.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PALP	PF00291	2 - 269	2.3e-61	Pyridoxal-phosphate dependent enzyme

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: OG0003261)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G03630
fragaria_vesca	FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730 FvH4_1g29730
malus_domestica	MD12G1013800.v1.1 MD14G1011300.v1.1
prunus_persica	Prupe.7G018300_v2.0.a1 Prupe.7G018300_v2.0.a1 Prupe.7G018300_v2.0.a1
pyrus_communis	pycom12g01140 pycom14g01000
rosa_chinensis	RchiOBHm_Chr3g0495741
rosa_laevigata	RLG00000022591
rosa_multiflora	Rmu_sc0020877.1_g000001
rosa_roxburghii	Rroxscaffold_6G00390070
rosa_rugosa	Rorug03G0276000 Rorug03G0276100 Rorug03G0276200 Rorug03G0276300
rosa_samantha	Rh3BG359000 Rh3DG358900
rosa_wichuraiana	Rw3G028270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	173
AccBSI	CCGCTC	1 cut(s)	577
AccI	GTMKAC	1 cut(s)	6
AccIII	TCCGGA	1 cut(s)	590
AciI	CCGC	4 cut(s)	24, 47, 577, 794
AclWI	GGATC	2 cut(s)	302, 409
AcoI	YGGCCR	1 cut(s)	681
AcsI	RAATTY	1 cut(s)	370
AfaI	GTAC	2 cut(s)	502, 837
AfiI	CCNNNNNNNGG	3 cut(s)	173, 317, 812
AgsI	TTSAA	6 cut(s)	164, 260, 325, 386, 677, 700
AhlI	ACTAGT	1 cut(s)	170
AjnI	CCWGG	3 cut(s)	142, 601, 683
AjuI	GAANNNNNNNTTGG	2 cut(s)	140, 172
AluBI	AGCT	7 cut(s)	55, 344, 671, 734, 743, 787, 810
AluI	AGCT	7 cut(s)	55, 344, 671, 734, 743, 787, 810
AlwI	GGATC	2 cut(s)	302, 409
AlwNI	CAGNNNCTG	3 cut(s)	515, 734, 746
Ama87I	CYCGRG	1 cut(s)	56
Aor13HI	TCCGGA	1 cut(s)	590
AoxI	GGCC	2 cut(s)	434, 681
ApeKI	GCWGC	7 cut(s)	206, 482, 734, 737, 740, 743, 746
ApoI	RAATTY	1 cut(s)	370
ArsI	GACNNNNNNTTYG	2 cut(s)	44, 76
AseI	ATTAAT	1 cut(s)	134
Asp700I	GAANNNNTTC	1 cut(s)	861
AspS9I	GGNCC	1 cut(s)	434
AsuC2I	CCSGG	1 cut(s)	433
AsuHPI	GGTGA	1 cut(s)	827
AvaI	CYCGRG	1 cut(s)	56
BalI	TGGCCA	1 cut(s)	683
BanII	GRGCYC	1 cut(s)	189
BbsI	GAAGAC	1 cut(s)	772
BbvI	GCAGC	7 cut(s)	193, 469, 721, 724, 730, 733, 752
BciT130I	CCWGG	3 cut(s)	144, 603, 685
BciVI	GTATCC	1 cut(s)	445
BcnI	CCSGG	1 cut(s)	433
BcuI	ACTAGT	1 cut(s)	170
BfaI	CTAG	2 cut(s)	171, 807
BfmI	CTRYAG	2 cut(s)	100, 738
BfuI	GTATCC	1 cut(s)	445
BisI	GCNGC	8 cut(s)	48, 207, 483, 735, 738, 741, 744, 747
BlsI	GCNGC	8 cut(s)	49, 208, 484, 736, 739, 742, 745, 748
Bme1390I	CCNGG	4 cut(s)	144, 433, 603, 685
BmeT110I	CYCGRG	1 cut(s)	56
BmgT120I	GGNCC	1 cut(s)	434
BmiI	GGNNCC	1 cut(s)	69
BmrFI	CCNGG	4 cut(s)	144, 433, 603, 685
BmrI	ACTGGG	1 cut(s)	525
BmsI	GCATC	2 cut(s)	254, 861
BmuI	ACTGGG	1 cut(s)	525
BpiI	GAAGAC	1 cut(s)	772
BpuMI	CCSGG	1 cut(s)	433
BsaAI	YACGTR	1 cut(s)	610
BsaBI	GATNNNNATC	1 cut(s)	136
BsaJI	CCNNGG	2 cut(s)	143, 456
BsaWI	WCCGGW	1 cut(s)	590
BsaXI	ACNNNNNCTCC	4 cut(s)	18, 48, 279, 309
Bsc4I	CCNNNNNNNGG	3 cut(s)	173, 317, 812
Bse1I	ACTGG	2 cut(s)	499, 520
Bse8I	GATNNNNATC	1 cut(s)	136
BseAI	TCCGGA	1 cut(s)	590
BseBI	CCWGG	3 cut(s)	144, 603, 685
BseDI	CCNNGG	2 cut(s)	143, 456
BseGI	GGATG	1 cut(s)	245
BseJI	GATNNNNATC	1 cut(s)	136
BseLI	CCNNNNNNNGG	3 cut(s)	173, 317, 812
BseMII	CTCAG	2 cut(s)	373, 762
BseNI	ACTGG	2 cut(s)	499, 520
BseXI	GCAGC	7 cut(s)	193, 469, 721, 724, 730, 733, 752
BshFI	GGCC	2 cut(s)	436, 683
BsiHKCI	CYCGRG	1 cut(s)	56
BsiSI	CCGG	2 cut(s)	432, 591
BslI	CCNNNNNNNGG	3 cut(s)	173, 317, 812
BsmI	GAATGC	1 cut(s)	781
BsnI	GGCC	2 cut(s)	436, 683
BsoBI	CYCGRG	1 cut(s)	56
Bsp1286I	GDGCHC	1 cut(s)	189
Bsp13I	TCCGGA	1 cut(s)	590
Bsp143I	GATC	3 cut(s)	307, 414, 585
Bsp19I	CCATGG	1 cut(s)	456
BspACI	CCGC	4 cut(s)	24, 47, 577, 794
BspANI	GGCC	2 cut(s)	436, 683
BspCNI	CTCAG	2 cut(s)	372, 763
BspEI	TCCGGA	1 cut(s)	590
BspLI	GGNNCC	1 cut(s)	69
BspMAI	CTGCAG	1 cut(s)	742
BspPI	GGATC	2 cut(s)	302, 409
BsrBI	CCGCTC	1 cut(s)	577
BsrI	ACTGG	2 cut(s)	499, 520
BssECI	CCNNGG	2 cut(s)	143, 456
BssMI	GATC	3 cut(s)	307, 414, 585
BssNAI	GTATAC	1 cut(s)	7
BssT1I	CCWWGG	1 cut(s)	456
Bst1107I	GTATAC	1 cut(s)	7
Bst2UI	CCWGG	3 cut(s)	144, 603, 685
Bst4CI	ACNGT	3 cut(s)	390, 505, 835
Bst6I	CTCTTC	1 cut(s)	845
BstAPI	GCANNNNNTGC	1 cut(s)	746
BstBAI	YACGTR	1 cut(s)	610
BstC8I	GCNNGC	2 cut(s)	243, 365
BstDEI	CTNAG	2 cut(s)	359, 771
BstDSI	CCRYGG	1 cut(s)	456
BstF5I	GGATG	1 cut(s)	245
BstKTI	GATC	3 cut(s)	310, 417, 588
BstMBI	GATC	3 cut(s)	307, 414, 585
BstMWI	GCNNNNNNNGC	6 cut(s)	44, 203, 287, 740, 743, 746
BstNI	CCWGG	3 cut(s)	144, 603, 685
BstSCI	CCNGG	4 cut(s)	142, 431, 601, 683
BstSFI	CTRYAG	2 cut(s)	100, 738
BstV1I	GCAGC	7 cut(s)	193, 469, 721, 724, 730, 733, 752
BstV2I	GAAGAC	1 cut(s)	772
BstX2I	RGATCY	2 cut(s)	307, 414
BstXI	CCANNNNNNTGG	1 cut(s)	444
BstYI	RGATCY	2 cut(s)	307, 414
BstZ17I	GTATAC	1 cut(s)	7
BsuI	GTATCC	1 cut(s)	445
BsuRI	GGCC	2 cut(s)	436, 683
BtgI	CCRYGG	1 cut(s)	456
BtgZI	GCGATG	1 cut(s)	548
BtsCI	GGATG	1 cut(s)	245
BtsIMutI	CAGTG	1 cut(s)	513
Cac8I	GCNNGC	2 cut(s)	243, 365
CaiI	CAGNNNCTG	3 cut(s)	515, 734, 746
Cfr13I	GGNCC	1 cut(s)	434
Csp6I	GTAC	2 cut(s)	501, 836
CviAII	CATG	4 cut(s)	106, 238, 457, 882
CviQI	GTAC	2 cut(s)	501, 836
DdeI	CTNAG	2 cut(s)	359, 771
DpnI	GATC	3 cut(s)	309, 416, 587
DpnII	GATC	3 cut(s)	307, 414, 585
EaeI	YGGCCR	1 cut(s)	681
Eam1104I	CTCTTC	1 cut(s)	845
EarI	CTCTTC	1 cut(s)	845
Eco130I	CCWWGG	1 cut(s)	456
Eco24I	GRGCYC	1 cut(s)	189
Eco32I	GATATC	1 cut(s)	111
Eco88I	CYCGRG	1 cut(s)	56
EcoRII	CCWGG	3 cut(s)	142, 601, 683
EcoRV	GATATC	1 cut(s)	111
EcoT14I	CCWWGG	1 cut(s)	456
EcoT38I	GRGCYC	1 cut(s)	189
ErhI	CCWWGG	1 cut(s)	456
FaeI	CATG	4 cut(s)	109, 241, 460, 885
FatI	CATG	4 cut(s)	105, 237, 456, 881
FblI	GTMKAC	1 cut(s)	6
Fnu4HI	GCNGC	8 cut(s)	48, 207, 483, 735, 738, 741, 744, 747
FokI	GGATG	1 cut(s)	232
FriOI	GRGCYC	1 cut(s)	189
Fsp4HI	GCNGC	8 cut(s)	48, 207, 483, 735, 738, 741, 744, 747
FspBI	CTAG	2 cut(s)	171, 807
GluI	GCNGC	8 cut(s)	48, 207, 483, 735, 738, 741, 744, 747
HaeIII	GGCC	2 cut(s)	436, 683
HapII	CCGG	2 cut(s)	432, 591
Hin1II	CATG	4 cut(s)	109, 241, 460, 885
HincII	GTYRAC	1 cut(s)	469
HindII	GTYRAC	1 cut(s)	469
HindIII	AAGCTT	1 cut(s)	785
HinfI	GANTC	2 cut(s)	59, 268
HpaII	CCGG	2 cut(s)	432, 591
HphI	GGTGA	1 cut(s)	827
Hpy166II	GTNNAC	2 cut(s)	7, 469
Hpy188I	TCNGA	2 cut(s)	191, 867
Hpy188III	TCNNGA	4 cut(s)	257, 311, 591, 729
Hpy8I	GTNNAC	2 cut(s)	7, 469
HpyAV	CCTTC	4 cut(s)	258, 310, 694, 698
HpyCH4III	ACNGT	3 cut(s)	390, 505, 835
HpyCH4IV	ACGT	2 cut(s)	609, 627
HpyCH4V	TGCA	6 cut(s)	119, 245, 404, 410, 740, 749
HpyF10VI	GCNNNNNNNGC	6 cut(s)	44, 203, 287, 740, 743, 746
HpyF3I	CTNAG	2 cut(s)	359, 771
HpySE526I	ACGT	2 cut(s)	609, 627
Hsp92II	CATG	4 cut(s)	109, 241, 460, 885
Kpn2I	TCCGGA	1 cut(s)	590
Kzo9I	GATC	3 cut(s)	307, 414, 585
LmnI	GCTCC	2 cut(s)	287, 731
Lsp1109I	GCAGC	7 cut(s)	193, 469, 721, 724, 730, 733, 752
LweI	GCATC	2 cut(s)	254, 861
MaeI	CTAG	2 cut(s)	171, 807
MaeII	ACGT	2 cut(s)	609, 627
MaeIII	GTNAC	5 cut(s)	232, 273, 505, 605, 655
MalI	GATC	3 cut(s)	309, 416, 587
MbiI	CCGCTC	1 cut(s)	577
MboI	GATC	3 cut(s)	307, 414, 585
MboII	GAAGA	5 cut(s)	160, 777, 832, 869, 880
MflI	RGATCY	2 cut(s)	307, 414
MhlI	GDGCHC	1 cut(s)	189
MlsI	TGGCCA	1 cut(s)	683
MluCI	AATT	5 cut(s)	93, 192, 351, 370, 397
MluNI	TGGCCA	1 cut(s)	683
MlyI	GAGTC	1 cut(s)	68
MmeI	TCCRAC	1 cut(s)	854
MnlI	CCTC	6 cut(s)	20, 20, 286, 442, 813, 869
Mox20I	TGGCCA	1 cut(s)	683
MroI	TCCGGA	1 cut(s)	590
MroXI	GAANNNNTTC	1 cut(s)	861
MscI	TGGCCA	1 cut(s)	683
MseI	TTAA	2 cut(s)	134, 630
Msp20I	TGGCCA	1 cut(s)	683
MspA1I	CMGCKG	1 cut(s)	743
MspI	CCGG	2 cut(s)	432, 591
MspR9I	CCNGG	4 cut(s)	144, 433, 603, 685
Mva1269I	GAATGC	1 cut(s)	781
MvaI	CCWGG	3 cut(s)	144, 603, 685
MwoI	GCNNNNNNNGC	6 cut(s)	44, 203, 287, 740, 743, 746
NciI	CCSGG	1 cut(s)	433
NcoI	CCATGG	1 cut(s)	456
NdeII	GATC	3 cut(s)	307, 414, 585
NlaIII	CATG	4 cut(s)	109, 241, 460, 885
NlaIV	GGNNCC	1 cut(s)	69
NmuCI	GTSAC	1 cut(s)	232
PaeR7I	CTCGAG	1 cut(s)	56
PctI	GAATGC	1 cut(s)	781
PdmI	GAANNNNTTC	1 cut(s)	861
PfeI	GAWTC	1 cut(s)	268
PflMI	CCANNNNNTGG	1 cut(s)	173
PkrI	GCNGC	8 cut(s)	49, 208, 484, 736, 739, 742, 745, 748
PleI	GAGTC	1 cut(s)	67
PpsI	GAGTC	1 cut(s)	67
Ppu21I	YACGTR	1 cut(s)	610
PshBI	ATTAAT	1 cut(s)	134
Psp6I	CCWGG	3 cut(s)	142, 601, 683
PspGI	CCWGG	3 cut(s)	142, 601, 683
PspN4I	GGNNCC	1 cut(s)	69
PspPI	GGNCC	1 cut(s)	434
PspXI	VCTCGAGB	1 cut(s)	56
PsrI	GAACNNNNNNTAC	2 cut(s)	484, 516
PstI	CTGCAG	1 cut(s)	742
PstNI	CAGNNNCTG	3 cut(s)	515, 734, 746
PsuI	RGATCY	2 cut(s)	307, 414
PvuII	CAGCTG	1 cut(s)	743
RsaI	GTAC	2 cut(s)	502, 837
RsaNI	GTAC	2 cut(s)	501, 836
SaqAI	TTAA	2 cut(s)	134, 630
SatI	GCNGC	8 cut(s)	48, 207, 483, 735, 738, 741, 744, 747
Sau3AI	GATC	3 cut(s)	307, 414, 585
Sau96I	GGNCC	1 cut(s)	434
SchI	GAGTC	1 cut(s)	68
ScrFI	CCNGG	4 cut(s)	144, 433, 603, 685
SduI	GDGCHC	1 cut(s)	189
SfaNI	GCATC	2 cut(s)	254, 861
SfcI	CTRYAG	2 cut(s)	100, 738
Sfr274I	CTCGAG	1 cut(s)	56
SlaI	CTCGAG	1 cut(s)	56
SmlI	CTYRAG	1 cut(s)	56
SmoI	CTYRAG	1 cut(s)	56
SpeI	ACTAGT	1 cut(s)	170
Sse9I	AATT	5 cut(s)	93, 192, 351, 370, 397
SsiI	CCGC	4 cut(s)	24, 47, 577, 794
SspI	AATATT	1 cut(s)	43
SspMI	CTAG	2 cut(s)	171, 807
StyD4I	CCNGG	4 cut(s)	142, 431, 601, 683
StyI	CCWWGG	1 cut(s)	456
TaaI	ACNGT	3 cut(s)	390, 505, 835
TaiI	ACGT	2 cut(s)	612, 630
TaqI	TCGA	1 cut(s)	57
TasI	AATT	5 cut(s)	93, 192, 351, 370, 397
TatI	WGTACW	1 cut(s)	835
TauI	GCSGC	1 cut(s)	50
TfiI	GAWTC	1 cut(s)	268
Tru1I	TTAA	2 cut(s)	134, 630
Tru9I	TTAA	2 cut(s)	134, 630
TscAI	CASTG	1 cut(s)	520
TseFI	GTSAC	1 cut(s)	232
TseI	GCWGC	7 cut(s)	206, 482, 734, 737, 740, 743, 746
Tsp45I	GTSAC	1 cut(s)	232
TspDTI	ATGAA	6 cut(s)	363, 551, 657, 681, 714, 870
TspRI	CASTG	1 cut(s)	520
Van91I	CCANNNNNTGG	1 cut(s)	173
VspI	ATTAAT	1 cut(s)	134
XapI	RAATTY	1 cut(s)	370
XhoI	CTCGAG	1 cut(s)	56
XmiI	GTMKAC	1 cut(s)	6
XmnI	GAANNNNTTC	1 cut(s)	861
XspI	CTAG	2 cut(s)	171, 807

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