Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0003959

Physical Location & Seq

Genomic Coordinates Forward (+)

3935623 .. 3941810

Gene Structure 6188 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG025000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 735 bp

ATGACGAAGGTCTACGGAACAGGCGCGTACGATTTCAAGCGCCACCATGTTGCCGAGTACCCGGTGGAGCTGAACCACCAGCTCGGAGAGAAGCCGGTGGAGGCTAAACCCGGTGCGGCGCTGCCGAGCTCGATAACGCTGTCGGAGATTCAGAGGGACCAGCTCACTATGATTGCCGCTGCCAATTGGTCCAAAGCCGGCGGCGACGCCGTGCAGGTGAAGAAGGCGTTCGACACGGAGCTGGTGAAGAAGATTTACGAGACGGAGTTGTGTGTGAAGGAGGGGCAGAGGAAGACGGTGCCGTTGCAGAGACTGATGATTTTGGAGGTCAGCCAGTATTTGGAGAACTATCTCTTTCCCAATTTCGATCCCGAAACGGCGTCGTTCGAGCACGTTATATCCATGATTCTCATGGTCAATGAGAAGTTTCGAGAGAATGTGGCAGCTTGGGTATGCTTTCATGACCGGAAAGATGCGTTTAAAGGATTCCTTGGAAGGGTTCTTCGCCTTAAATCGCTAACTATGACAGTTGGAGAGATCTTTCTTGCGGTATTCCTTCGGGTGCTTCTGGAGAGGTTAACGCGTAAAGAGATCCTTGGAAGGTTGGGAGGAGTTGGCAAAAAGCTGCAGAAATGGAGGGAAACACTGTACGCAGTTGCAGTGGTGCTTTACGATGCGGAGGAGAAGCAGCTGATCACGAGCAGGGCAGTGGAGCTATGGCTGAAATCTGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

AAA_11 AAA_12 Aquarius_N

Protein Analysis

244

Amino Acids

27.86

Weight (kDa)

8.9

Isoelectric Point (pI)

28.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Aquarius_N_1st	PF16399	55 - 171	1e-33	Intron-binding protein aquarius N-terminal
Rx_N	PF18052	182 - 242	8e-07	Rx N-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0003959)

Species	Orthologous Gene IDs
malus_domestica	MD02G1293500.v1.1
rosa_chinensis	RchiOBHm_Chr1g0320051 RchiOBHm_Chr1g0320091 RchiOBHm_Chr1g0320381 RchiOBHm_Chr1g0320421 RchiOBHm_Chr1g0320881 RchiOBHm_Chr1g0320981
rosa_laevigata	RLG00000030457
rosa_multiflora	Rmu_sc0001049.1_g000002 Rmu_sc0002341.1_g000001 Rmu_sc0002745.1_g000009 Rmu_sc0004555.1_g000002 Rmu_sc0004555.1_g000003 Rmu_sc0004627.1_g000010 Rmu_sc0019966.1_g000002 Rmu_sc0036675.1_g000001
rosa_rugosa	Rorug01G0030400 Rorug01G0055600
rosa_samantha	Rh1AG042600 Rh1CG043300 Rh1CG043700 Rh1CG044000 Rh1CG044200 Rh1CG044700 Rh1CG044800 Rh1DG023000 Rh1DG023200 Rh1DG023700 Rh1DG024000 Rh1DG025000 Rh1DG025600 Rh1DG026600 Rh1DG049200
rosa_wichuraiana	Rw1G003520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	205
Acc36I	ACCTGC	1 cut(s)	205
AccB1I	GGYRCC	1 cut(s)	298
AccB7I	CCANNNNNTGG	1 cut(s)	340
AccI	GTMKAC	1 cut(s)	12
AccII	CGCG	2 cut(s)	26, 583
AciI	CCGC	5 cut(s)	116, 177, 201, 548, 677
AclWI	GGATC	2 cut(s)	362, 586
AcyI	GRCGYC	2 cut(s)	207, 380
AfaI	GTAC	3 cut(s)	29, 59, 650
AfiI	CCNNNNNNNGG	2 cut(s)	340, 496
AflIII	ACRYGT	1 cut(s)	581
AgsI	TTSAA	1 cut(s)	37
AluBI	AGCT	9 cut(s)	70, 82, 129, 163, 241, 446, 625, 691, 715
AluI	AGCT	9 cut(s)	70, 82, 129, 163, 241, 446, 625, 691, 715
Alw21I	GWGCWC	2 cut(s)	131, 393
Alw26I	GTCTC	2 cut(s)	254, 304
AlwI	GGATC	2 cut(s)	362, 586
AlwNI	CAGNNNCTG	1 cut(s)	313
ApeKI	GCWGC	5 cut(s)	121, 179, 443, 625, 688
Asp700I	GAANNNNTTC	1 cut(s)	227
AspLEI	GCGC	3 cut(s)	26, 42, 121
AspS9I	GGNCC	2 cut(s)	157, 189
AsuC2I	CCSGG	2 cut(s)	62, 111
AsuHPI	GGTGA	2 cut(s)	229, 256
AvaII	GGWCC	2 cut(s)	157, 189
BanI	GGYRCC	1 cut(s)	298
BanII	GRGCYC	1 cut(s)	131
BarI	GAAGNNNNNNTAC	2 cut(s)	239, 271
BauI	CACGAG	1 cut(s)	697
BbsI	GAAGAC	1 cut(s)	299
Bbv12I	GWGCWC	2 cut(s)	131, 393
BbvI	GCAGC	5 cut(s)	108, 166, 455, 612, 700
BceAI	ACGGC	3 cut(s)	194, 286, 393
BclI	TGATCA	1 cut(s)	693
BcnI	CCSGG	2 cut(s)	62, 111
BcoDI	GTCTC	2 cut(s)	254, 304
BfmI	CTRYAG	1 cut(s)	626
BfoI	RGCGCY	2 cut(s)	43, 122
BfuAI	ACCTGC	1 cut(s)	205
BglII	AGATCT	1 cut(s)	537
BisI	GCNGC	8 cut(s)	117, 122, 177, 180, 202, 444, 626, 689
BlsI	GCNGC	8 cut(s)	118, 123, 178, 181, 203, 445, 627, 690
Bme1390I	CCNGG	2 cut(s)	62, 111
Bme18I	GGWCC	2 cut(s)	157, 189
BmgT120I	GGNCC	2 cut(s)	157, 189
BmiI	GGNNCC	2 cut(s)	158, 300
BmrFI	CCNGG	2 cut(s)	62, 111
BmsI	GCATC	2 cut(s)	463, 664
BoxI	GACNNNNGTC	1 cut(s)	8
BpiI	GAAGAC	1 cut(s)	299
BpmI	CTGGAG	1 cut(s)	590
BpuMI	CCSGG	2 cut(s)	62, 111
BsaHI	GRCGYC	2 cut(s)	207, 380
BsaJI	CCNNGG	2 cut(s)	490, 595
BsaWI	WCCGGW	1 cut(s)	465
Bsc4I	CCNNNNNNNGG	2 cut(s)	340, 496
Bse118I	RCCGGY	2 cut(s)	94, 197
Bse1I	ACTGG	1 cut(s)	334
BseDI	CCNNGG	2 cut(s)	490, 595
BseLI	CCNNNNNNNGG	2 cut(s)	340, 496
BseNI	ACTGG	1 cut(s)	334
BseRI	GAGGAG	2 cut(s)	624, 695
BseXI	GCAGC	5 cut(s)	108, 166, 455, 612, 700
BsgI	GTGCAG	1 cut(s)	233
Bsh1236I	CGCG	2 cut(s)	26, 583
BshNI	GGYRCC	1 cut(s)	298
BsiHKAI	GWGCWC	2 cut(s)	131, 393
BsiSI	CCGG	5 cut(s)	62, 95, 111, 198, 466
BsiWI	CGTACG	1 cut(s)	27
BslFI	GGGAC	1 cut(s)	170
BslI	CCNNNNNNNGG	2 cut(s)	340, 496
BsmAI	GTCTC	2 cut(s)	254, 304
BsmBI	CGTCTC	1 cut(s)	254
BsmFI	GGGAC	1 cut(s)	170
Bsp1286I	GDGCHC	2 cut(s)	131, 393
Bsp143I	GATC	4 cut(s)	367, 537, 591, 693
BspACI	CCGC	5 cut(s)	116, 177, 201, 548, 677
BspFNI	CGCG	2 cut(s)	26, 583
BspHI	TCATGA	1 cut(s)	460
BspLI	GGNNCC	2 cut(s)	158, 300
BspMAI	CTGCAG	1 cut(s)	630
BspMI	ACCTGC	1 cut(s)	205
BspPI	GGATC	2 cut(s)	362, 586
BspT107I	GGYRCC	1 cut(s)	298
BsrFI	RCCGGY	2 cut(s)	94, 197
BsrI	ACTGG	1 cut(s)	334
BssAI	RCCGGY	2 cut(s)	94, 197
BssECI	CCNNGG	2 cut(s)	490, 595
BssMI	GATC	4 cut(s)	367, 537, 591, 693
BssNI	GRCGYC	2 cut(s)	207, 380
BssSI	CACGAG	1 cut(s)	697
BssT1I	CCWWGG	2 cut(s)	490, 595
Bst2BI	CACGAG	1 cut(s)	697
Bst4CI	ACNGT	3 cut(s)	298, 529, 648
BstACI	GRCGYC	2 cut(s)	207, 380
BstC8I	GCNNGC	1 cut(s)	199
BstFNI	CGCG	2 cut(s)	26, 583
BstH2I	RGCGCY	2 cut(s)	43, 122
BstHHI	GCGC	3 cut(s)	26, 42, 121
BstKTI	GATC	4 cut(s)	370, 540, 594, 696
BstMAI	GTCTC	2 cut(s)	254, 304
BstMBI	GATC	4 cut(s)	367, 537, 591, 693
BstPAI	GACNNNNGTC	1 cut(s)	8
BstSCI	CCNGG	2 cut(s)	60, 109
BstSFI	CTRYAG	1 cut(s)	626
BstUI	CGCG	2 cut(s)	26, 583
BstV1I	GCAGC	5 cut(s)	108, 166, 455, 612, 700
BstV2I	GAAGAC	1 cut(s)	299
BstX2I	RGATCY	2 cut(s)	537, 591
BstYI	RGATCY	2 cut(s)	537, 591
BtsI	GCAGTG	2 cut(s)	666, 714
BtsIMutI	CAGTG	3 cut(s)	644, 666, 714
BveI	ACCTGC	1 cut(s)	205
Cac8I	GCNNGC	1 cut(s)	199
CaiI	CAGNNNCTG	1 cut(s)	313
CciI	TCATGA	1 cut(s)	460
CfoI	GCGC	3 cut(s)	26, 42, 121
Cfr10I	RCCGGY	2 cut(s)	94, 197
Cfr13I	GGNCC	2 cut(s)	157, 189
CseI	GACGC	2 cut(s)	215, 369
Csp6I	GTAC	3 cut(s)	28, 58, 649
CviAII	CATG	4 cut(s)	47, 403, 412, 461
CviQI	GTAC	3 cut(s)	28, 58, 649
DpnI	GATC	4 cut(s)	369, 539, 593, 695
DpnII	GATC	4 cut(s)	367, 537, 591, 693
DraI	TTTAAA	1 cut(s)	481
Ecl136II	GAGCTC	1 cut(s)	129
Eco130I	CCWWGG	2 cut(s)	490, 595
Eco24I	GRGCYC	1 cut(s)	131
Eco47I	GGWCC	2 cut(s)	157, 189
Eco53kI	GAGCTC	1 cut(s)	129
EcoICRI	GAGCTC	1 cut(s)	129
EcoT14I	CCWWGG	2 cut(s)	490, 595
EcoT38I	GRGCYC	1 cut(s)	131
ErhI	CCWWGG	2 cut(s)	490, 595
Esp3I	CGTCTC	1 cut(s)	254
FaeI	CATG	4 cut(s)	50, 406, 415, 464
FaiI	YATR	9 cut(s)	48, 170, 398, 404, 413, 454, 462, 524, 718
FalI	AAGNNNNNCTT	4 cut(s)	474, 506, 579, 611
FaqI	GGGAC	1 cut(s)	170
FatI	CATG	4 cut(s)	46, 402, 411, 460
FbaI	TGATCA	1 cut(s)	693
FblI	GTMKAC	1 cut(s)	12
Fnu4HI	GCNGC	8 cut(s)	117, 122, 177, 180, 202, 444, 626, 689
FriOI	GRGCYC	1 cut(s)	131
Fsp4HI	GCNGC	8 cut(s)	117, 122, 177, 180, 202, 444, 626, 689
GlaI	GCGC	3 cut(s)	25, 41, 120
GluI	GCNGC	8 cut(s)	117, 122, 177, 180, 202, 444, 626, 689
GsuI	CTGGAG	1 cut(s)	590
HaeII	RGCGCY	2 cut(s)	43, 122
HapII	CCGG	5 cut(s)	62, 95, 111, 198, 466
HgaI	GACGC	2 cut(s)	215, 369
HhaI	GCGC	3 cut(s)	26, 42, 121
Hin1I	GRCGYC	2 cut(s)	207, 380
Hin1II	CATG	4 cut(s)	50, 406, 415, 464
Hin6I	GCGC	3 cut(s)	24, 40, 119
HinP1I	GCGC	3 cut(s)	24, 40, 119
HincII	GTYRAC	1 cut(s)	579
HindII	GTYRAC	1 cut(s)	579
HinfI	GANTC	3 cut(s)	148, 406, 486
HpaI	GTTAAC	1 cut(s)	579
HpaII	CCGG	5 cut(s)	62, 95, 111, 198, 466
HphI	GGTGA	2 cut(s)	229, 256
Hpy166II	GTNNAC	2 cut(s)	13, 579
Hpy188I	TCNGA	4 cut(s)	86, 145, 153, 730
Hpy188III	TCNNGA	5 cut(s)	371, 431, 461, 569, 697
Hpy8I	GTNNAC	2 cut(s)	13, 579
Hpy99I	CGWCG	2 cut(s)	209, 385
HpyAV	CCTTC	5 cut(s)	217, 271, 489, 566, 594
HpyCH4III	ACNGT	3 cut(s)	298, 529, 648
HpyCH4IV	ACGT	1 cut(s)	393
HpyCH4V	TGCA	4 cut(s)	214, 307, 628, 659
HpySE526I	ACGT	1 cut(s)	393
Hsp92I	GRCGYC	2 cut(s)	207, 380
Hsp92II	CATG	4 cut(s)	50, 406, 415, 464
HspAI	GCGC	3 cut(s)	24, 40, 119
KroI	GCCGGC	1 cut(s)	197
KroNI	GCCGGC	1 cut(s)	199
Ksp22I	TGATCA	1 cut(s)	693
KspAI	GTTAAC	1 cut(s)	579
Kzo9I	GATC	4 cut(s)	367, 537, 591, 693
LmnI	GCTCC	3 cut(s)	67, 238, 712
Lsp1109I	GCAGC	5 cut(s)	108, 166, 455, 612, 700
LweI	GCATC	2 cut(s)	463, 664
MaeII	ACGT	1 cut(s)	393
MalI	GATC	4 cut(s)	369, 539, 593, 695
MboI	GATC	4 cut(s)	367, 537, 591, 693
MboII	GAAGA	5 cut(s)	232, 259, 262, 304, 494
MfeI	CAATTG	1 cut(s)	184
MflI	RGATCY	2 cut(s)	537, 591
MhlI	GDGCHC	2 cut(s)	131, 393
MluCI	AATT	2 cut(s)	184, 361
MluI	ACGCGT	1 cut(s)	581
MmeI	TCCRAC	2 cut(s)	123, 511
MnlI	CCTC	9 cut(s)	94, 147, 274, 282, 319, 567, 602, 630, 673
MroNI	GCCGGC	1 cut(s)	197
MroXI	GAANNNNTTC	1 cut(s)	227
MseI	TTAA	3 cut(s)	480, 510, 578
MspA1I	CMGCKG	2 cut(s)	179, 691
MspI	CCGG	5 cut(s)	62, 95, 111, 198, 466
MspR9I	CCNGG	2 cut(s)	62, 111
MunI	CAATTG	1 cut(s)	184
MvnI	CGCG	2 cut(s)	26, 583
NaeI	GCCGGC	1 cut(s)	199
NciI	CCSGG	2 cut(s)	62, 111
NdeII	GATC	4 cut(s)	367, 537, 591, 693
NgoMIV	GCCGGC	1 cut(s)	197
NlaIII	CATG	4 cut(s)	50, 406, 415, 464
NlaIV	GGNNCC	2 cut(s)	158, 300
NmeAIII	GCCGAG	2 cut(s)	79, 150
PagI	TCATGA	1 cut(s)	460
PaqCI	CACCTGC	1 cut(s)	205
PdiI	GCCGGC	1 cut(s)	199
PdmI	GAANNNNTTC	1 cut(s)	227
PfeI	GAWTC	3 cut(s)	148, 406, 486
Pfl23II	CGTACG	1 cut(s)	27
PflMI	CCANNNNNTGG	1 cut(s)	340
PkrI	GCNGC	8 cut(s)	118, 123, 178, 181, 203, 445, 627, 690
PshAI	GACNNNNGTC	1 cut(s)	8
Psp124BI	GAGCTC	1 cut(s)	131
PspLI	CGTACG	1 cut(s)	27
PspN4I	GGNNCC	2 cut(s)	158, 300
PspPI	GGNCC	2 cut(s)	157, 189
PstI	CTGCAG	1 cut(s)	630
PstNI	CAGNNNCTG	1 cut(s)	313
PsuI	RGATCY	2 cut(s)	537, 591
PvuII	CAGCTG	1 cut(s)	691
RsaI	GTAC	3 cut(s)	29, 59, 650
RsaNI	GTAC	3 cut(s)	28, 58, 649
SacI	GAGCTC	1 cut(s)	131
SaqAI	TTAA	3 cut(s)	480, 510, 578
SatI	GCNGC	8 cut(s)	117, 122, 177, 180, 202, 444, 626, 689
Sau3AI	GATC	4 cut(s)	367, 537, 591, 693
Sau96I	GGNCC	2 cut(s)	157, 189
ScrFI	CCNGG	2 cut(s)	62, 111
SduI	GDGCHC	2 cut(s)	131, 393
SfaNI	GCATC	2 cut(s)	463, 664
SfcI	CTRYAG	1 cut(s)	626
SinI	GGWCC	2 cut(s)	157, 189
Sse9I	AATT	2 cut(s)	184, 361
SsiI	CCGC	5 cut(s)	116, 177, 201, 548, 677
SstI	GAGCTC	1 cut(s)	131
StyD4I	CCNGG	2 cut(s)	60, 109
StyI	CCWWGG	2 cut(s)	490, 595
TaaI	ACNGT	3 cut(s)	298, 529, 648
TaiI	ACGT	1 cut(s)	396
TaqI	TCGA	5 cut(s)	131, 231, 366, 387, 430
TasI	AATT	2 cut(s)	184, 361
TauI	GCSGC	3 cut(s)	119, 179, 204
TfiI	GAWTC	3 cut(s)	148, 406, 486
Tru1I	TTAA	3 cut(s)	480, 510, 578
Tru9I	TTAA	3 cut(s)	480, 510, 578
TscAI	CASTG	3 cut(s)	651, 666, 714
TseI	GCWGC	5 cut(s)	121, 179, 443, 625, 688
TspDTI	ATGAA	1 cut(s)	449
TspGWI	ACGGA	3 cut(s)	30, 251, 278
TspRI	CASTG	3 cut(s)	651, 666, 714
Van91I	CCANNNNNTGG	1 cut(s)	340
VpaK11BI	GGWCC	2 cut(s)	157, 189
XcmI	CCANNNNNNNNNTGG	1 cut(s)	409
XmiI	GTMKAC	1 cut(s)	12
XmnI	GAANNNNTTC	1 cut(s)	227

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