Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0002342

Physical Location & Seq

Genomic Coordinates Reverse (-)

513722 .. 517575

Gene Structure 3854 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG004100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1077 bp

ATGATGAAGCGCCAACTATCAAAGCTTTCCCACTTGCGTACAGGCTTTGGAAATTTCAATTCTTTCCTGTGCTCATGCTTTGAAACTGGGTCCACCAGTGGTGATGCCCAGGGCTTACTTCATCAGCAAATGCGAATGAATGGCTCCCCTTATGCAACTTGCTGTGCCAAGTTGCCGGAGGAGCTTCCAAAAGATAATCCTGTTTCCAATATGTTGATTGACTCTTTTGGAAGGCAGCACACTTACTTGAGGATCTCTTTAACAGAGCGTTGCAATCTGCGATGTCAATACTGCATGCCAGCCGAGGGTGTCAGCCTCACTCCTGGCCCTAAGATTCTCTCACAGAATGAGCTTGTTCGCTTGGCTAATCTGTTTGTAAGCTCCGGAGTCAATAAAATTCGTTTGACTGGAGGGGAGCCAACCGTAAGGAAAGATATTGAAGACATATGCTTACACTTGTCTAACTTGAAGGGACTAAAAACGCTGGCTATCACTACTAATGGAATCACTCTTGCACGAAAACTTCCCAAGTTGAAAGAATGCGGCCTTAGTGCTGTGAATATTAGTTTAGACACCTTGGTCCCTGCAAAGTTTGAATTTTTGACCAGGCGTAAAGGGCATGAAAGGGTTATGGACTCAATTAATGCTGCCATAGACCTCGGTTATAATCCTGTTAAGGTAAATTGCGTTGTAATGCGTGGGTTCAATGATGATGAGATTTGCGATTTCGTAGAGCTGACACGTGAAAAGCCAATTAACATTCGATTCATTGAGTTCATGCCTTTTGATGGAAATGTATGGAATGTTAAGAAACTTGTACCCTACGCAGAAATATTGGATAGAGTGGCAAAACATTTTACAGGCCTAAAAAGACTTCAGGATCACCCAACTGATACTGCCAAGAATTTCAGGATAAATGATCATCTTGGTACAGTTTCTTTTATCACATCAATGACTGAGCATTTTTGTGCTGGTTGCAATAGATTGCGACTCTTAGCTGATGGGAACTTCAAAGTTTGCTTGTTTGGTCCTTCAGAGGTCAGTCATATGCCTGTCCGTACTTTATCTTGTTATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006732 GO:0006777 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009108 GO:0009507 GO:0009536 GO:0009987 GO:0018130 GO:0019538 GO:0019637 GO:0019720 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043545 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0051186 GO:0051188 GO:0051189 GO:0071704 GO:0090407 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00790 ko01100 ko04122 map00790 map01100 map04122

Pfam Domains

Protein Families

Fer4_12 Mob_synth_C Radical_SAM

Protein Analysis

358

Amino Acids

40.14

Weight (kDa)

8.92

Isoelectric Point (pI)

38.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Radical_SAM	PF04055	85 - 246	9.2e-35	Radical SAM superfamily
Mob_synth_C	PF06463	252 - 348	1e-27	Molybdenum Cofactor Synthesis C

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: OG0002342)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G31955 AT2G31955 AT2G31955 AT2G31955 AT2G31955 AT2G31955
fragaria_vesca	FvH4_5g30330 FvH4_5g30330 FvH4_5g30330 FvH4_5g30330 FvH4_5g30330 FvH4_5g30330 FvH4_5g30330 FvH4_5g30330 FvH4_5g30330 FvH4_5g30330 FvH4_5g30330
malus_domestica	MD02G1319400.v1.1
prunus_persica	Prupe.1G561800_v2.0.a1 Prupe.1G561800_v2.0.a1 Prupe.1G561800_v2.0.a1 Prupe.1G561800_v2.0.a1 Prupe.1G561800_v2.0.a1 Prupe.1G561800_v2.0.a1 Prupe.1G561800_v2.0.a1 Prupe.1G561800_v2.0.a1 Prupe.1G561800_v2.0.a1 Prupe.1G561800_v2.0.a1 Prupe.1G561800_v2.0.a1
pyrus_communis	pycom02g26760
rosa_chinensis	RchiOBHm_Chr1g0313251
rosa_laevigata	RLG00000030811
rosa_multiflora	Rmu_sc0005182.1_g000003
rosa_roxburghii	Rroxscaffold_4G00332300
rosa_rugosa	RorugPtG0002000.1 RorugPtG0002100
rosa_samantha	Rh1AG002100 Rh1CG004100 Rh1CG006500 Rh1DG001900 Rh5BG434700
rosa_wichuraiana	Rw1G000110

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	666
AasI	GACNNNNNNGTC	1 cut(s)	578
AccIII	TCCGGA	1 cut(s)	383
AciI	CCGC	1 cut(s)	543
AclWI	GGATC	2 cut(s)	260, 888
AcsI	RAATTY	4 cut(s)	52, 396, 596, 904
AcuI	CTGAAG	2 cut(s)	860, 1017
AcvI	CACGTG	1 cut(s)	743
AfaI	GTAC	4 cut(s)	40, 819, 931, 1060
AfiI	CCNNNNNNNGG	2 cut(s)	305, 788
AflIII	ACRYGT	1 cut(s)	740
AgsI	TTSAA	8 cut(s)	58, 83, 440, 469, 535, 596, 706, 1012
AjnI	CCWGG	3 cut(s)	108, 322, 605
AluBI	AGCT	6 cut(s)	25, 184, 352, 381, 736, 998
AluI	AGCT	6 cut(s)	25, 184, 352, 381, 736, 998
Alw21I	GWGCWC	1 cut(s)	74
AlwI	GGATC	2 cut(s)	260, 888
Aor13HI	TCCGGA	1 cut(s)	383
AoxI	GGCC	3 cut(s)	325, 544, 862
ApeKI	GCWGC	2 cut(s)	235, 647
ApoI	RAATTY	4 cut(s)	52, 396, 596, 904
AseI	ATTAAT	1 cut(s)	642
AspLEI	GCGC	1 cut(s)	12
AspS9I	GGNCC	4 cut(s)	90, 326, 580, 1028
AsuHPI	GGTGA	2 cut(s)	113, 875
AvaII	GGWCC	3 cut(s)	90, 580, 1028
BbrPI	CACGTG	1 cut(s)	743
BbsI	GAAGAC	1 cut(s)	447
Bbv12I	GWGCWC	1 cut(s)	74
BbvI	GCAGC	2 cut(s)	247, 634
BccI	CCATC	2 cut(s)	782, 995
BciT130I	CCWGG	3 cut(s)	110, 324, 607
BclI	TGATCA	1 cut(s)	919
BfoI	RGCGCY	1 cut(s)	13
BisI	GCNGC	3 cut(s)	236, 544, 648
BlsI	GCNGC	3 cut(s)	237, 545, 649
Bme1390I	CCNGG	3 cut(s)	110, 324, 607
Bme18I	GGWCC	3 cut(s)	90, 580, 1028
BmgT120I	GGNCC	4 cut(s)	90, 326, 580, 1028
BmiI	GGNNCC	4 cut(s)	91, 145, 417, 582
BmrFI	CCNGG	3 cut(s)	110, 324, 607
BmrI	ACTGGG	1 cut(s)	96
BmsI	GCATC	1 cut(s)	94
BmuI	ACTGGG	1 cut(s)	96
BpiI	GAAGAC	1 cut(s)	447
BpmI	CTGGAG	1 cut(s)	429
BpuEI	CTTGAG	1 cut(s)	268
BsaAI	YACGTR	1 cut(s)	743
BsaJI	CCNNGG	5 cut(s)	108, 109, 303, 576, 658
BsaWI	WCCGGW	1 cut(s)	383
Bsc4I	CCNNNNNNNGG	2 cut(s)	305, 788
Bse1I	ACTGG	3 cut(s)	91, 96, 412
BseAI	TCCGGA	1 cut(s)	383
BseBI	CCWGG	3 cut(s)	110, 324, 607
BseDI	CCNNGG	5 cut(s)	108, 109, 303, 576, 658
BseLI	CCNNNNNNNGG	2 cut(s)	305, 788
BseMII	CTCAG	1 cut(s)	948
BseNI	ACTGG	3 cut(s)	91, 96, 412
BseRI	GAGGAG	1 cut(s)	194
BseXI	GCAGC	2 cut(s)	247, 634
BshFI	GGCC	3 cut(s)	327, 546, 864
BsiHKAI	GWGCWC	1 cut(s)	74
BsiSI	CCGG	2 cut(s)	176, 384
BslFI	GGGAC	2 cut(s)	486, 566
BslI	CCNNNNNNNGG	2 cut(s)	305, 788
BsmFI	GGGAC	2 cut(s)	486, 566
BsmI	GAATGC	1 cut(s)	545
BsnI	GGCC	3 cut(s)	327, 546, 864
Bsp1286I	GDGCHC	1 cut(s)	74
Bsp13I	TCCGGA	1 cut(s)	383
Bsp143I	GATC	3 cut(s)	252, 880, 919
BspACI	CCGC	1 cut(s)	543
BspANI	GGCC	3 cut(s)	327, 546, 864
BspCNI	CTCAG	1 cut(s)	949
BspEI	TCCGGA	1 cut(s)	383
BspLI	GGNNCC	4 cut(s)	91, 145, 417, 582
BspPI	GGATC	2 cut(s)	260, 888
BsrI	ACTGG	3 cut(s)	91, 96, 412
BssECI	CCNNGG	5 cut(s)	108, 109, 303, 576, 658
BssMI	GATC	3 cut(s)	252, 880, 919
BssT1I	CCWWGG	1 cut(s)	576
Bst2UI	CCWGG	3 cut(s)	110, 324, 607
Bst4CI	ACNGT	2 cut(s)	424, 934
BstBAI	YACGTR	1 cut(s)	743
BstC8I	GCNNGC	3 cut(s)	296, 300, 486
BstDEI	CTNAG	4 cut(s)	330, 548, 957, 994
BstH2I	RGCGCY	1 cut(s)	13
BstHHI	GCGC	1 cut(s)	12
BstKTI	GATC	3 cut(s)	255, 883, 922
BstMBI	GATC	3 cut(s)	252, 880, 919
BstMWI	GCNNNNNNNGC	2 cut(s)	181, 616
BstNI	CCWGG	3 cut(s)	110, 324, 607
BstNSI	RCATGY	1 cut(s)	298
BstSCI	CCNGG	3 cut(s)	108, 322, 605
BstV1I	GCAGC	2 cut(s)	247, 634
BstV2I	GAAGAC	1 cut(s)	447
BstX2I	RGATCY	1 cut(s)	252
BstYI	RGATCY	1 cut(s)	252
BsuRI	GGCC	3 cut(s)	327, 546, 864
BtgZI	GCGATG	1 cut(s)	295
BtsIMutI	CAGTG	1 cut(s)	103
Cac8I	GCNNGC	3 cut(s)	296, 300, 486
CfoI	GCGC	1 cut(s)	12
Cfr13I	GGNCC	4 cut(s)	90, 326, 580, 1028
Csp6I	GTAC	4 cut(s)	39, 818, 930, 1059
CviAII	CATG	4 cut(s)	75, 295, 620, 778
CviQI	GTAC	4 cut(s)	39, 818, 930, 1059
DdeI	CTNAG	4 cut(s)	330, 548, 957, 994
DpnI	GATC	3 cut(s)	254, 882, 921
DpnII	GATC	3 cut(s)	252, 880, 919
DrdI	GACNNNNNNGTC	1 cut(s)	578
DseDI	GACNNNNNNGTC	1 cut(s)	578
Eco130I	CCWWGG	1 cut(s)	576
Eco147I	AGGCCT	1 cut(s)	864
Eco47I	GGWCC	3 cut(s)	90, 580, 1028
Eco57I	CTGAAG	2 cut(s)	860, 1017
Eco72I	CACGTG	1 cut(s)	743
EcoRII	CCWGG	3 cut(s)	108, 322, 605
EcoT14I	CCWWGG	1 cut(s)	576
ErhI	CCWWGG	1 cut(s)	576
FaeI	CATG	4 cut(s)	78, 298, 623, 781
FaqI	GGGAC	2 cut(s)	486, 566
FatI	CATG	4 cut(s)	74, 294, 619, 777
FauNDI	CATATG	2 cut(s)	446, 1047
FbaI	TGATCA	1 cut(s)	919
Fnu4HI	GCNGC	3 cut(s)	236, 544, 648
Fsp4HI	GCNGC	3 cut(s)	236, 544, 648
GlaI	GCGC	1 cut(s)	11
GluI	GCNGC	3 cut(s)	236, 544, 648
GsuI	CTGGAG	1 cut(s)	429
HaeII	RGCGCY	1 cut(s)	13
HaeIII	GGCC	3 cut(s)	327, 546, 864
HapII	CCGG	2 cut(s)	176, 384
HhaI	GCGC	1 cut(s)	12
Hin1II	CATG	4 cut(s)	78, 298, 623, 781
Hin6I	GCGC	1 cut(s)	10
HinP1I	GCGC	1 cut(s)	10
HindIII	AAGCTT	1 cut(s)	23
HinfI	GANTC	7 cut(s)	221, 334, 387, 504, 635, 765, 990
HpaII	CCGG	2 cut(s)	176, 384
HphI	GGTGA	2 cut(s)	113, 875
Hpy166II	GTNNAC	1 cut(s)	93
Hpy188I	TCNGA	1 cut(s)	1036
Hpy188III	TCNNGA	3 cut(s)	384, 878, 910
Hpy8I	GTNNAC	1 cut(s)	93
HpyAV	CCTTC	3 cut(s)	225, 463, 1041
HpyCH4III	ACNGT	2 cut(s)	424, 934
HpyCH4IV	ACGT	1 cut(s)	742
HpyCH4V	TGCA	6 cut(s)	155, 273, 294, 515, 587, 978
HpyF10VI	GCNNNNNNNGC	2 cut(s)	181, 616
HpyF3I	CTNAG	4 cut(s)	330, 548, 957, 994
HpySE526I	ACGT	1 cut(s)	742
Hsp92II	CATG	4 cut(s)	78, 298, 623, 781
HspAI	GCGC	1 cut(s)	10
Kpn2I	TCCGGA	1 cut(s)	383
Ksp22I	TGATCA	1 cut(s)	919
Kzo9I	GATC	3 cut(s)	252, 880, 919
LmnI	GCTCC	4 cut(s)	149, 181, 386, 415
Lsp1109I	GCAGC	2 cut(s)	247, 634
LweI	GCATC	1 cut(s)	94
MaeII	ACGT	1 cut(s)	742
MalI	GATC	3 cut(s)	254, 882, 921
MboI	GATC	3 cut(s)	252, 880, 919
MboII	GAAGA	1 cut(s)	452
MflI	RGATCY	1 cut(s)	252
MhlI	GDGCHC	1 cut(s)	74
MluCI	AATT	8 cut(s)	52, 58, 396, 596, 639, 682, 753, 904
MlyI	GAGTC	4 cut(s)	215, 396, 629, 984
MnlI	CCTC	7 cut(s)	172, 243, 298, 326, 404, 668, 1030
MroI	TCCGGA	1 cut(s)	383
MseI	TTAA	5 cut(s)	260, 642, 675, 756, 807
MslI	CAYNNNNRTG	2 cut(s)	950, 966
MspI	CCGG	2 cut(s)	176, 384
MspR9I	CCNGG	3 cut(s)	110, 324, 607
Mva1269I	GAATGC	1 cut(s)	545
MvaI	CCWGG	3 cut(s)	110, 324, 607
MwoI	GCNNNNNNNGC	2 cut(s)	181, 616
NdeI	CATATG	2 cut(s)	446, 1047
NdeII	GATC	3 cut(s)	252, 880, 919
NlaIII	CATG	4 cut(s)	78, 298, 623, 781
NlaIV	GGNNCC	4 cut(s)	91, 145, 417, 582
NmeAIII	GCCGAG	1 cut(s)	328
NspI	RCATGY	1 cut(s)	298
PaeI	GCATGC	1 cut(s)	298
PasI	CCCWGGG	1 cut(s)	109
PceI	AGGCCT	1 cut(s)	864
PctI	GAATGC	1 cut(s)	545
PfeI	GAWTC	3 cut(s)	334, 504, 765
PkrI	GCNGC	3 cut(s)	237, 545, 649
PleI	GAGTC	4 cut(s)	215, 395, 629, 984
PmaCI	CACGTG	1 cut(s)	743
PmlI	CACGTG	1 cut(s)	743
PpsI	GAGTC	4 cut(s)	215, 395, 629, 984
Ppu21I	YACGTR	1 cut(s)	743
PshBI	ATTAAT	1 cut(s)	642
PsiI	TTATAA	1 cut(s)	666
Psp6I	CCWGG	3 cut(s)	108, 322, 605
PspCI	CACGTG	1 cut(s)	743
PspGI	CCWGG	3 cut(s)	108, 322, 605
PspN4I	GGNNCC	4 cut(s)	91, 145, 417, 582
PspPI	GGNCC	4 cut(s)	90, 326, 580, 1028
PsuI	RGATCY	1 cut(s)	252
RsaI	GTAC	4 cut(s)	40, 819, 931, 1060
RsaNI	GTAC	4 cut(s)	39, 818, 930, 1059
RseI	CAYNNNNRTG	2 cut(s)	950, 966
SaqAI	TTAA	5 cut(s)	260, 642, 675, 756, 807
SatI	GCNGC	3 cut(s)	236, 544, 648
Sau3AI	GATC	3 cut(s)	252, 880, 919
Sau96I	GGNCC	4 cut(s)	90, 326, 580, 1028
SchI	GAGTC	4 cut(s)	215, 396, 629, 984
ScrFI	CCNGG	3 cut(s)	110, 324, 607
SduI	GDGCHC	1 cut(s)	74
SfaNI	GCATC	1 cut(s)	94
SinI	GGWCC	3 cut(s)	90, 580, 1028
SmiMI	CAYNNNNRTG	2 cut(s)	950, 966
SmlI	CTYRAG	1 cut(s)	247
SmoI	CTYRAG	1 cut(s)	247
SphI	GCATGC	1 cut(s)	298
Sse9I	AATT	8 cut(s)	52, 58, 396, 596, 639, 682, 753, 904
SseBI	AGGCCT	1 cut(s)	864
SsiI	CCGC	1 cut(s)	543
SspI	AATATT	2 cut(s)	562, 834
StuI	AGGCCT	1 cut(s)	864
StyD4I	CCNGG	3 cut(s)	108, 322, 605
StyI	CCWWGG	1 cut(s)	576
TaaI	ACNGT	2 cut(s)	424, 934
TaiI	ACGT	1 cut(s)	745
TaqI	TCGA	1 cut(s)	763
TasI	AATT	8 cut(s)	52, 58, 396, 596, 639, 682, 753, 904
TauI	GCSGC	1 cut(s)	546
TfiI	GAWTC	3 cut(s)	334, 504, 765
Tru1I	TTAA	5 cut(s)	260, 642, 675, 756, 807
Tru9I	TTAA	5 cut(s)	260, 642, 675, 756, 807
TscAI	CASTG	1 cut(s)	103
TseI	GCWGC	2 cut(s)	235, 647
TspDTI	ATGAA	6 cut(s)	20, 110, 152, 636, 757, 766
TspGWI	ACGGA	1 cut(s)	1046
TspRI	CASTG	1 cut(s)	103
VpaK11BI	GGWCC	3 cut(s)	90, 580, 1028
VspI	ATTAAT	1 cut(s)	642
XapI	RAATTY	4 cut(s)	52, 396, 596, 904
XceI	RCATGY	1 cut(s)	298

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