Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0003604

Physical Location & Seq

Genomic Coordinates Forward (+)

14020902 .. 14026040

Gene Structure 5139 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG088600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 813 bp

ATGAGTTATCTTCAGTTACGGGAGGAAGACATTTTAATAAGAGGACTCAATTGGAGCAAACTTCTTGATCCTAATAAGAAGGGCCAGTGGTGGTCATCTGGGGATATTGCTTCAACAGTAGACAATGTCGAAGAGGTTGCCAACACAATAGATAAAGAAGTTCTTGAAGCCCAGAAACTTTTGCAGCTCGCTGCTGCACAGAGAATGAACACAGATGCTAGAAAGGCAATTTTTTGTATAATTATGAGCGGGGAGGATTACGTTGATGCATTTGCGAAGCTTTTGAGATTGGATTTACATGGAAAGCAGGACAGAGAAATAATGCGAGTTCTTGTGGAGTGCTGTTTGCAGGAGAAAGTGTTTAACAAGTATTACACAATTCTGGCTTCCAAATTGTGCGAGCATGACAAAAATCACAAGTTCACATTACAGTTTTGCCTTTGGGACCACTTCAAACAGCTGGACTCAATGCAGCTGAGTAGGTCAATGCACCTAGCCAAATTTGTTGCAGAGATGGTAGCCTCTTTCACCCTCTCCCTTGCGGTACTGAAGACTGTAGATCTAGCTGACATCAAGCAACTAACTGCAAAAAGGACAATGTATTTCCGGATGTTATTTGAGGCCATCTTTGAGTATCCAGATAGCCTTGTATGGAATATATTCACGCGAGTAGCTGTCACCCCGGAGCTTGAAAGTCTTCGACATGGGATCGAATTTTTTACCAAGTATATTGTGGAAACCAATAAATCCCTCAGTGAAAAGTTTAAGCTTGCAAGGAAAGCCCTGAATAATGCTGAAGGGGTCCTCATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000151 GO:0003006 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005677 GO:0005737 GO:0006139 GO:0006323 GO:0006325 GO:0006333 GO:0006338 GO:0006349 GO:0006725 GO:0006807 GO:0006996 GO:0007275 GO:0008150 GO:0008152 GO:0008283 GO:0009507 GO:0009536 GO:0009555 GO:0009790 GO:0009791 GO:0009793 GO:0009888 GO:0009909 GO:0009987 GO:0010026 GO:0010154 GO:0010214 GO:0010468 GO:0016043 GO:0017053 GO:0019219 GO:0019222 GO:0022414 GO:0022607 GO:0030154 GO:0031323 GO:0031461 GO:0031497 GO:0031507 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0040029 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045787 GO:0046483 GO:0048229 GO:0048316 GO:0048366 GO:0048367 GO:0048518 GO:0048522 GO:0048580 GO:0048608 GO:0048731 GO:0048827 GO:0048831 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051239 GO:0051276 GO:0051726 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0070828 GO:0071103 GO:0071514 GO:0071704 GO:0071840 GO:0080008 GO:0080090 GO:0090558 GO:0090568 GO:0099402 GO:1901360 GO:1902494 GO:1990234 GO:2000026 GO:2000241 GO:2000653

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

MA3 MIF4G

Protein Analysis

270

Amino Acids

31.32

Weight (kDa)

7.01

Isoelectric Point (pI)

40.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MA3	PF02847	74 - 175	6.8e-21	MA3 domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003604)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G17930
fragaria_vesca	FvH4_2g11600 FvH4_2g11600 FvH4_2g11600 FvH4_2g11600
malus_domestica	MD12G1008000.v1.1
prunus_persica	Prupe.1G541500_v2.0.a1 Prupe.1G541500_v2.0.a1 Prupe.1G541500_v2.0.a1 Prupe.1G541500_v2.0.a1 Prupe.1G541500_v2.0.a1 Prupe.1G541500_v2.0.a1 Prupe.1G541500_v2.0.a1
pyrus_communis	pycom12g00600
rosa_chinensis	RchiOBHm_Chr5g0003011 RchiOBHm_Chr5g0003131 RchiOBHm_Chr6g0270841
rosa_laevigata	RLG00000013766 RLG00000029740 RLG00000030769
rosa_multiflora	Rmu_co8456101.1_g000001 Rmu_sc0000642.1_g000028 Rmu_sc0003683.1_g000002 Rmu_sc0005956.1_g000006
rosa_roxburghii	Rroxscaffold_7G00197590
rosa_rugosa	Rorug06G0056700 Rorug06G0056800
rosa_samantha	Rh1BG088600 Rh1DG121800 Rh6AG176100 Rh6BG179300 Rh6CG175500 Rh6DG167800
rosa_wichuraiana	Rw1G009430 Rw6G015000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	249
AccI	GTMKAC	1 cut(s)	120
AccII	CGCG	1 cut(s)	667
AccIII	TCCGGA	1 cut(s)	606
AciI	CCGC	2 cut(s)	249, 542
AclWI	GGATC	2 cut(s)	62, 716
AcsI	RAATTY	2 cut(s)	500, 713
AcuI	CTGAAG	1 cut(s)	569
AfaI	GTAC	1 cut(s)	546
AgsI	TTSAA	4 cut(s)	114, 167, 454, 692
AluBI	AGCT	8 cut(s)	187, 280, 460, 475, 566, 674, 688, 769
AluI	AGCT	8 cut(s)	187, 280, 460, 475, 566, 674, 688, 769
AlwI	GGATC	2 cut(s)	62, 716
Aor13HI	TCCGGA	1 cut(s)	606
AoxI	GGCC	2 cut(s)	82, 621
ApeKI	GCWGC	4 cut(s)	184, 191, 194, 472
ApoI	RAATTY	2 cut(s)	500, 713
Asp700I	GAANNNNTTC	2 cut(s)	659, 696
AspS9I	GGNCC	3 cut(s)	82, 445, 802
AsuC2I	CCSGG	1 cut(s)	683
AsuHPI	GGTGA	2 cut(s)	520, 670
AvaII	GGWCC	2 cut(s)	445, 802
BbsI	GAAGAC	3 cut(s)	33, 557, 689
BbvI	GCAGC	4 cut(s)	178, 181, 196, 484
BccI	CCATC	2 cut(s)	508, 632
BcgI	CGANNNNNNTGC	2 cut(s)	119, 153
BciVI	GTATCC	1 cut(s)	645
BcnI	CCSGG	1 cut(s)	683
BfaI	CTAG	3 cut(s)	219, 494, 563
BfmI	CTRYAG	1 cut(s)	555
BfuI	GTATCC	1 cut(s)	645
BglII	AGATCT	1 cut(s)	559
BisI	GCNGC	4 cut(s)	185, 192, 195, 473
BlsI	GCNGC	4 cut(s)	186, 193, 196, 474
Bme1390I	CCNGG	1 cut(s)	683
Bme18I	GGWCC	2 cut(s)	445, 802
BmgT120I	GGNCC	3 cut(s)	82, 445, 802
BmiI	GGNNCC	2 cut(s)	446, 803
BmrFI	CCNGG	1 cut(s)	683
BmsI	GCATC	2 cut(s)	205, 256
BpiI	GAAGAC	3 cut(s)	33, 557, 689
BpuMI	CCSGG	1 cut(s)	683
BsaJI	CCNNGG	1 cut(s)	681
BsaWI	WCCGGW	1 cut(s)	606
BsaXI	ACNNNNNCTCC	2 cut(s)	344, 374
Bse1I	ACTGG	1 cut(s)	85
BseAI	TCCGGA	1 cut(s)	606
BseDI	CCNNGG	1 cut(s)	681
BseGI	GGATG	1 cut(s)	615
BseMII	CTCAG	2 cut(s)	467, 766
BseNI	ACTGG	1 cut(s)	85
BseXI	GCAGC	4 cut(s)	178, 181, 196, 484
BsgI	GTGCAG	1 cut(s)	180
Bsh1236I	CGCG	1 cut(s)	667
BshFI	GGCC	2 cut(s)	84, 623
BsiSI	CCGG	2 cut(s)	607, 683
BslFI	GGGAC	1 cut(s)	458
BsmFI	GGGAC	1 cut(s)	458
BsnI	GGCC	2 cut(s)	84, 623
Bsp13I	TCCGGA	1 cut(s)	606
Bsp143I	GATC	3 cut(s)	67, 559, 708
BspACI	CCGC	2 cut(s)	249, 542
BspANI	GGCC	2 cut(s)	84, 623
BspCNI	CTCAG	2 cut(s)	468, 765
BspEI	TCCGGA	1 cut(s)	606
BspFNI	CGCG	1 cut(s)	667
BspLI	GGNNCC	2 cut(s)	446, 803
BspPI	GGATC	2 cut(s)	62, 716
BsrBI	CCGCTC	1 cut(s)	249
BsrI	ACTGG	1 cut(s)	85
BssECI	CCNNGG	1 cut(s)	681
BssMI	GATC	3 cut(s)	67, 559, 708
Bst4CI	ACNGT	3 cut(s)	118, 432, 556
Bst6I	CTCTTC	1 cut(s)	126
BstC8I	GCNNGC	3 cut(s)	189, 401, 771
BstDEI	CTNAG	2 cut(s)	476, 752
BstF5I	GGATG	1 cut(s)	615
BstFNI	CGCG	1 cut(s)	667
BstKTI	GATC	3 cut(s)	70, 562, 711
BstMBI	GATC	3 cut(s)	67, 559, 708
BstMWI	GCNNNNNNNGC	2 cut(s)	224, 779
BstSCI	CCNGG	1 cut(s)	681
BstSFI	CTRYAG	1 cut(s)	555
BstUI	CGCG	1 cut(s)	667
BstV1I	GCAGC	4 cut(s)	178, 181, 196, 484
BstV2I	GAAGAC	3 cut(s)	33, 557, 689
BstX2I	RGATCY	1 cut(s)	559
BstYI	RGATCY	1 cut(s)	559
BsuI	GTATCC	1 cut(s)	645
BsuRI	GGCC	2 cut(s)	84, 623
BtsCI	GGATG	1 cut(s)	615
BtsIMutI	CAGTG	2 cut(s)	92, 760
Cac8I	GCNNGC	3 cut(s)	189, 401, 771
Cfr13I	GGNCC	3 cut(s)	82, 445, 802
Csp6I	GTAC	1 cut(s)	545
CviAII	CATG	4 cut(s)	299, 404, 704, 808
CviQI	GTAC	1 cut(s)	545
DdeI	CTNAG	2 cut(s)	476, 752
DpnI	GATC	3 cut(s)	69, 561, 710
DpnII	GATC	3 cut(s)	67, 559, 708
Eam1104I	CTCTTC	1 cut(s)	126
EarI	CTCTTC	1 cut(s)	126
Eco47I	GGWCC	2 cut(s)	445, 802
Eco57I	CTGAAG	1 cut(s)	569
EcoO109I	RGGNCCY	1 cut(s)	802
EcoT22I	ATGCAT	1 cut(s)	271
FaeI	CATG	4 cut(s)	302, 407, 707, 811
FaiI	YATR	9 cut(s)	239, 245, 300, 405, 652, 659, 705, 729, 809
FalI	AAGNNNNNCTT	2 cut(s)	147, 179
FaqI	GGGAC	1 cut(s)	458
FatI	CATG	4 cut(s)	298, 403, 703, 807
FauI	CCCGC	1 cut(s)	242
FblI	GTMKAC	1 cut(s)	120
Fnu4HI	GCNGC	4 cut(s)	185, 192, 195, 473
FokI	GGATG	1 cut(s)	622
Fsp4HI	GCNGC	4 cut(s)	185, 192, 195, 473
FspBI	CTAG	3 cut(s)	219, 494, 563
GluI	GCNGC	4 cut(s)	185, 192, 195, 473
HaeIII	GGCC	2 cut(s)	84, 623
HapII	CCGG	2 cut(s)	607, 683
Hin1II	CATG	4 cut(s)	302, 407, 707, 811
HindIII	AAGCTT	2 cut(s)	278, 767
HinfI	GANTC	2 cut(s)	45, 464
HpaII	CCGG	2 cut(s)	607, 683
HphI	GGTGA	2 cut(s)	520, 670
Hpy166II	GTNNAC	2 cut(s)	121, 423
Hpy188III	TCNNGA	4 cut(s)	65, 164, 607, 638
Hpy8I	GTNNAC	2 cut(s)	121, 423
HpyAV	CCTTC	2 cut(s)	73, 791
HpyCH4III	ACNGT	3 cut(s)	118, 432, 556
HpyCH4IV	ACGT	1 cut(s)	261
HpyCH4V	TGCA	9 cut(s)	184, 197, 269, 349, 472, 490, 509, 587, 773
HpyF10VI	GCNNNNNNNGC	2 cut(s)	224, 779
HpyF3I	CTNAG	2 cut(s)	476, 752
HpySE526I	ACGT	1 cut(s)	261
Hsp92II	CATG	4 cut(s)	302, 407, 707, 811
Kpn2I	TCCGGA	1 cut(s)	606
Kzo9I	GATC	3 cut(s)	67, 559, 708
LmnI	GCTCC	2 cut(s)	54, 685
Lsp1109I	GCAGC	4 cut(s)	178, 181, 196, 484
LweI	GCATC	2 cut(s)	205, 256
MaeI	CTAG	3 cut(s)	219, 494, 563
MaeII	ACGT	1 cut(s)	261
MaeIII	GTNAC	2 cut(s)	15, 676
MalI	GATC	3 cut(s)	69, 561, 710
MbiI	CCGCTC	1 cut(s)	249
MboI	GATC	3 cut(s)	67, 559, 708
MboII	GAAGA	4 cut(s)	38, 143, 562, 689
MfeI	CAATTG	1 cut(s)	49
MflI	RGATCY	1 cut(s)	559
MluCI	AATT	7 cut(s)	49, 228, 240, 378, 392, 500, 713
MlyI	GAGTC	2 cut(s)	39, 458
MnlI	CCTC	8 cut(s)	16, 35, 127, 247, 532, 542, 613, 761
Mph1103I	ATGCAT	1 cut(s)	271
MroI	TCCGGA	1 cut(s)	606
MroXI	GAANNNNTTC	2 cut(s)	659, 696
MseI	TTAA	3 cut(s)	35, 363, 765
MspA1I	CMGCKG	2 cut(s)	460, 475
MspI	CCGG	2 cut(s)	607, 683
MspR9I	CCNGG	1 cut(s)	683
MunI	CAATTG	1 cut(s)	49
MvnI	CGCG	1 cut(s)	667
MwoI	GCNNNNNNNGC	2 cut(s)	224, 779
NciI	CCSGG	1 cut(s)	683
NdeII	GATC	3 cut(s)	67, 559, 708
NlaIII	CATG	4 cut(s)	302, 407, 707, 811
NlaIV	GGNNCC	2 cut(s)	446, 803
NmuCI	GTSAC	1 cut(s)	676
NsiI	ATGCAT	1 cut(s)	271
PdmI	GAANNNNTTC	2 cut(s)	659, 696
PflFI	GACNNNGTC	1 cut(s)	125
PkrI	GCNGC	4 cut(s)	186, 193, 196, 474
PleI	GAGTC	2 cut(s)	39, 458
PpsI	GAGTC	2 cut(s)	39, 458
PpuMI	RGGWCCY	1 cut(s)	802
Psp5II	RGGWCCY	1 cut(s)	802
PspN4I	GGNNCC	2 cut(s)	446, 803
PspPI	GGNCC	3 cut(s)	82, 445, 802
PspPPI	RGGWCCY	1 cut(s)	802
PsuI	RGATCY	1 cut(s)	559
PsyI	GACNNNGTC	1 cut(s)	125
PvuII	CAGCTG	2 cut(s)	460, 475
RsaI	GTAC	1 cut(s)	546
RsaNI	GTAC	1 cut(s)	545
SaqAI	TTAA	3 cut(s)	35, 363, 765
SatI	GCNGC	4 cut(s)	185, 192, 195, 473
Sau3AI	GATC	3 cut(s)	67, 559, 708
Sau96I	GGNCC	3 cut(s)	82, 445, 802
SchI	GAGTC	2 cut(s)	39, 458
ScrFI	CCNGG	1 cut(s)	683
SfaNI	GCATC	2 cut(s)	205, 256
SfcI	CTRYAG	1 cut(s)	555
SinI	GGWCC	2 cut(s)	445, 802
Sse9I	AATT	7 cut(s)	49, 228, 240, 378, 392, 500, 713
SsiI	CCGC	2 cut(s)	249, 542
SspMI	CTAG	3 cut(s)	219, 494, 563
StyD4I	CCNGG	1 cut(s)	681
TaaI	ACNGT	3 cut(s)	118, 432, 556
TaiI	ACGT	1 cut(s)	264
TaqI	TCGA	3 cut(s)	129, 700, 711
TasI	AATT	7 cut(s)	49, 228, 240, 378, 392, 500, 713
Tru1I	TTAA	3 cut(s)	35, 363, 765
Tru9I	TTAA	3 cut(s)	35, 363, 765
TscAI	CASTG	2 cut(s)	92, 760
TseFI	GTSAC	1 cut(s)	676
TseI	GCWGC	4 cut(s)	184, 191, 194, 472
Tsp45I	GTSAC	1 cut(s)	676
TspDTI	ATGAA	1 cut(s)	221
TspRI	CASTG	2 cut(s)	92, 760
Tth111I	GACNNNGTC	1 cut(s)	125
VpaK11BI	GGWCC	2 cut(s)	445, 802
XapI	RAATTY	2 cut(s)	500, 713
XcmI	CCANNNNNNNNNTGG	1 cut(s)	730
XmiI	GTMKAC	1 cut(s)	120
XmnI	GAANNNNTTC	2 cut(s)	659, 696
XspI	CTAG	3 cut(s)	219, 494, 563
Zsp2I	ATGCAT	1 cut(s)	271

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