Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0005685

Physical Location & Seq

Genomic Coordinates Forward (+)

48012248 .. 48014152

Gene Structure 1905 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG262800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 624 bp

ATGATTGGGATAATGGCTCTAGCTGAGGCATGTGGGGTGGCTGTGCAATCTATTATGACTGTTGGTGGCATAGGAGGAGTTGCTACTGCTTTTGCTGCTAGAGATGTCCTTGGCAATGTGCTGAGTGGTTTATCTATGCAATTTACAAAGCCCTTTTCGCTAGGTGATACAATAAAGGCTGGATCCATAGAAGGTCAAGTGGTGGATATGGGACTTACAACCACTTCATTACTGAATGCCGAGAAGTTCCCAGTGATAGTTCCCAATTCACTCTTTTCTAGTCAGGTGATTGTGAACAAGTCACGTGCTCAATGGCGTGGCATCGTCACCAGAATTCCCCTGCAAATCAATGATGATTTGGATAAGGTTCCCCAGATATCAGATGATATAAAAAGCATGCTTAGATCGCACCCGAAGGTTTTCTTGGGAAAGGAGGTGCCTTATTGTTTCCTTTCTCGTCTAGAGAGCTCATTTGGAGAATTGACTCTTGGATGTAACCTCAAACATATGAGCAAGGATGAGTTATTCTCTACAGAAGAAGATATCCTTTTGCAGTCGGTCAAGATAATTAAGGGGCATGGTGCCAAGTTGGGCAGCACCTATGGTGATATGACCACTCCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005215 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0006810 GO:0006950 GO:0006979 GO:0008150 GO:0008381 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0009987 GO:0015267 GO:0016020 GO:0019866 GO:0022803 GO:0022836 GO:0022857 GO:0031090 GO:0031966 GO:0031967 GO:0031975 GO:0033554 GO:0034599 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044429 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051179 GO:0051234 GO:0051716 GO:0055085 GO:0070887

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

MS_channel

Protein Analysis

207

Amino Acids

22.18

Weight (kDa)

6.29

Isoelectric Point (pI)

31.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MS_channel_2nd	PF00924	35 - 102	7.4e-17	Mechanosensitive ion channel, beta-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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0005685)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G00234 AT4G00290
fragaria_vesca	FvH4_7g15010 FvH4_7g15010 FvH4_7g15010 FvH4_7g15010 FvH4_7g15010 FvH4_7g15010
malus_domestica	MD01G1068400.v1.1
prunus_persica	Prupe.2G174600_v2.0.a1 Prupe.2G174600_v2.0.a1
pyrus_communis	pycom07g13030
rosa_chinensis	RchiOBHm_Chr1g0357041
rosa_laevigata	RLG00000028058
rosa_multiflora	Rmu_sc0000166.1_g000040 Rmu_sc0013980.1_g000024
rosa_roxburghii	Rroxscaffold_4G00299100 Rroxscaffold_6G00397860 Rroxscaffold_7G00208020
rosa_rugosa	Rorug01G0253800
rosa_samantha	Rh1AG267500 Rh1BG235300 Rh1BG235400 Rh1CG146800 Rh1CG251500 Rh1DG262700 Rh1DG262800
rosa_wichuraiana	Rw1G023620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	436, 581
AclWI	GGATC	2 cut(s)	177, 190
AcsI	RAATTY	1 cut(s)	333
AcvI	CACGTG	1 cut(s)	305
AjuI	GAANNNNNNNTTGG	4 cut(s)	407, 439, 471, 503
AluBI	AGCT	2 cut(s)	23, 468
AluI	AGCT	2 cut(s)	23, 468
Alw21I	GWGCWC	2 cut(s)	310, 470
AlwI	GGATC	2 cut(s)	177, 190
ApeKI	GCWGC	2 cut(s)	95, 594
ApoI	RAATTY	1 cut(s)	333
Asp700I	GAANNNNTTC	1 cut(s)	419
AsuHPI	GGTGA	4 cut(s)	176, 298, 319, 617
BamHI	GGATCC	1 cut(s)	182
BanI	GGYRCC	2 cut(s)	436, 581
BanII	GRGCYC	1 cut(s)	470
BbrPI	CACGTG	1 cut(s)	305
Bbv12I	GWGCWC	2 cut(s)	310, 470
BbvCI	CCTCAGC	1 cut(s)	24
BbvI	GCAGC	2 cut(s)	82, 606
BfaI	CTAG	5 cut(s)	20, 99, 161, 279, 461
BfmI	CTRYAG	1 cut(s)	531
BisI	GCNGC	2 cut(s)	96, 595
BlsI	GCNGC	2 cut(s)	97, 596
BmiI	GGNNCC	4 cut(s)	184, 369, 438, 583
BmrI	ACTGGG	1 cut(s)	245
BmsI	GCATC	1 cut(s)	330
BmuI	ACTGGG	1 cut(s)	245
BplI	GAGNNNNNCTC	2 cut(s)	512, 544
Bpu10I	CCTNAGC	1 cut(s)	24
BsaAI	YACGTR	1 cut(s)	305
BsaJI	CCNNGG	1 cut(s)	109
Bse1I	ACTGG	1 cut(s)	251
Bse3DI	GCAATG	1 cut(s)	121
BseDI	CCNNGG	1 cut(s)	109
BseGI	GGATG	2 cut(s)	497, 523
BseMI	GCAATG	1 cut(s)	121
BseMII	CTCAG	2 cut(s)	15, 113
BseNI	ACTGG	1 cut(s)	251
BseRI	GAGGAG	1 cut(s)	90
BseXI	GCAGC	2 cut(s)	82, 606
BshNI	GGYRCC	2 cut(s)	436, 581
BsiHKAI	GWGCWC	2 cut(s)	310, 470
BslFI	GGGAC	1 cut(s)	225
BsmFI	GGGAC	1 cut(s)	225
BsmI	GAATGC	1 cut(s)	241
Bsp1286I	GDGCHC	2 cut(s)	310, 470
Bsp143I	GATC	2 cut(s)	182, 404
BspCNI	CTCAG	2 cut(s)	16, 114
BspLI	GGNNCC	4 cut(s)	184, 369, 438, 583
BspPI	GGATC	2 cut(s)	177, 190
BspT107I	GGYRCC	2 cut(s)	436, 581
BsrDI	GCAATG	1 cut(s)	121
BsrI	ACTGG	1 cut(s)	251
BssECI	CCNNGG	1 cut(s)	109
BssMI	GATC	2 cut(s)	182, 404
BssT1I	CCWWGG	1 cut(s)	109
Bst4CI	ACNGT	1 cut(s)	61
BstBAI	YACGTR	1 cut(s)	305
BstC8I	GCNNGC	1 cut(s)	398
BstDEI	CTNAG	3 cut(s)	24, 122, 401
BstF5I	GGATG	2 cut(s)	497, 523
BstKTI	GATC	2 cut(s)	185, 407
BstMBI	GATC	2 cut(s)	182, 404
BstMWI	GCNNNNNNNGC	3 cut(s)	95, 157, 406
BstNSI	RCATGY	2 cut(s)	33, 400
BstSFI	CTRYAG	1 cut(s)	531
BstV1I	GCAGC	2 cut(s)	82, 606
BstX2I	RGATCY	1 cut(s)	182
BstYI	RGATCY	1 cut(s)	182
BtsCI	GGATG	2 cut(s)	497, 523
BtsIMutI	CAGTG	1 cut(s)	258
Cac8I	GCNNGC	1 cut(s)	398
CviAII	CATG	3 cut(s)	30, 397, 578
CviJI	RGCY	6 cut(s)	17, 23, 41, 151, 179, 468
CviKI_1	RGCY	6 cut(s)	17, 23, 41, 151, 179, 468
DdeI	CTNAG	3 cut(s)	24, 122, 401
DpnI	GATC	2 cut(s)	184, 406
DpnII	GATC	2 cut(s)	182, 404
Ecl136II	GAGCTC	1 cut(s)	468
Eco130I	CCWWGG	1 cut(s)	109
Eco24I	GRGCYC	1 cut(s)	470
Eco32I	GATATC	2 cut(s)	378, 544
Eco53kI	GAGCTC	1 cut(s)	468
Eco72I	CACGTG	1 cut(s)	305
EcoICRI	GAGCTC	1 cut(s)	468
EcoRI	GAATTC	1 cut(s)	333
EcoRV	GATATC	2 cut(s)	378, 544
EcoT14I	CCWWGG	1 cut(s)	109
EcoT38I	GRGCYC	1 cut(s)	470
ErhI	CCWWGG	1 cut(s)	109
FaeI	CATG	3 cut(s)	33, 400, 581
FalI	AAGNNNNNCTT	4 cut(s)	407, 439, 531, 563
FaqI	GGGAC	1 cut(s)	225
FatI	CATG	3 cut(s)	29, 396, 577
FauNDI	CATATG	1 cut(s)	507
Fnu4HI	GCNGC	2 cut(s)	96, 595
FokI	GGATG	2 cut(s)	504, 530
FriOI	GRGCYC	1 cut(s)	470
Fsp4HI	GCNGC	2 cut(s)	96, 595
FspBI	CTAG	5 cut(s)	20, 99, 161, 279, 461
GluI	GCNGC	2 cut(s)	96, 595
Hin1II	CATG	3 cut(s)	33, 400, 581
HinfI	GANTC	1 cut(s)	484
HphI	GGTGA	4 cut(s)	176, 298, 319, 617
Hpy166II	GTNNAC	1 cut(s)	295
Hpy188I	TCNGA	1 cut(s)	382
Hpy188III	TCNNGA	2 cut(s)	461, 562
Hpy8I	GTNNAC	1 cut(s)	295
HpyAV	CCTTC	2 cut(s)	185, 409
HpyCH4III	ACNGT	1 cut(s)	61
HpyCH4IV	ACGT	1 cut(s)	304
HpyCH4V	TGCA	4 cut(s)	46, 139, 343, 553
HpyF10VI	GCNNNNNNNGC	3 cut(s)	95, 157, 406
HpyF3I	CTNAG	3 cut(s)	24, 122, 401
HpySE526I	ACGT	1 cut(s)	304
Hsp92II	CATG	3 cut(s)	33, 400, 581
Kzo9I	GATC	2 cut(s)	182, 404
LpnPI	CCDG	6 cut(s)	165, 264, 269, 343, 353, 386
Lsp1109I	GCAGC	2 cut(s)	82, 606
LweI	GCATC	1 cut(s)	330
MaeI	CTAG	5 cut(s)	20, 99, 161, 279, 461
MaeII	ACGT	1 cut(s)	304
MaeIII	GTNAC	3 cut(s)	300, 325, 494
MalI	GATC	2 cut(s)	184, 406
MboI	GATC	2 cut(s)	182, 404
MboII	GAAGA	2 cut(s)	548, 551
MflI	RGATCY	1 cut(s)	182
MhlI	GDGCHC	2 cut(s)	310, 470
MluCI	AATT	5 cut(s)	140, 265, 333, 479, 567
MlyI	GAGTC	1 cut(s)	478
MnlI	CCTC	4 cut(s)	19, 68, 427, 509
MroXI	GAANNNNTTC	1 cut(s)	419
MseI	TTAA	1 cut(s)	570
Mva1269I	GAATGC	1 cut(s)	241
MwoI	GCNNNNNNNGC	3 cut(s)	95, 157, 406
NdeI	CATATG	1 cut(s)	507
NdeII	GATC	2 cut(s)	182, 404
NlaIII	CATG	3 cut(s)	33, 400, 581
NlaIV	GGNNCC	4 cut(s)	184, 369, 438, 583
NmeAIII	GCCGAG	1 cut(s)	265
NmuCI	GTSAC	2 cut(s)	300, 325
NspI	RCATGY	2 cut(s)	33, 400
PaeI	GCATGC	1 cut(s)	400
PctI	GAATGC	1 cut(s)	241
PdmI	GAANNNNTTC	1 cut(s)	419
PkrI	GCNGC	2 cut(s)	97, 596
PleI	GAGTC	1 cut(s)	478
PmaCI	CACGTG	1 cut(s)	305
PmlI	CACGTG	1 cut(s)	305
PpsI	GAGTC	1 cut(s)	478
Ppu21I	YACGTR	1 cut(s)	305
Psp124BI	GAGCTC	1 cut(s)	470
PspCI	CACGTG	1 cut(s)	305
PspN4I	GGNNCC	4 cut(s)	184, 369, 438, 583
PsuI	RGATCY	1 cut(s)	182
SacI	GAGCTC	1 cut(s)	470
SaqAI	TTAA	1 cut(s)	570
SatI	GCNGC	2 cut(s)	96, 595
Sau3AI	GATC	2 cut(s)	182, 404
SchI	GAGTC	1 cut(s)	478
SduI	GDGCHC	2 cut(s)	310, 470
SfaNI	GCATC	1 cut(s)	330
SfcI	CTRYAG	1 cut(s)	531
SphI	GCATGC	1 cut(s)	400
Sse9I	AATT	5 cut(s)	140, 265, 333, 479, 567
SspMI	CTAG	5 cut(s)	20, 99, 161, 279, 461
SstI	GAGCTC	1 cut(s)	470
StyI	CCWWGG	1 cut(s)	109
TaaI	ACNGT	1 cut(s)	61
TaiI	ACGT	1 cut(s)	307
TaqII	GACCGA	1 cut(s)	547
TasI	AATT	5 cut(s)	140, 265, 333, 479, 567
Tru1I	TTAA	1 cut(s)	570
Tru9I	TTAA	1 cut(s)	570
TscAI	CASTG	1 cut(s)	258
TseFI	GTSAC	2 cut(s)	300, 325
TseI	GCWGC	2 cut(s)	95, 594
Tsp45I	GTSAC	2 cut(s)	300, 325
TspDTI	ATGAA	1 cut(s)	216
TspRI	CASTG	1 cut(s)	258
XapI	RAATTY	1 cut(s)	333
XbaI	TCTAGA	1 cut(s)	460
XceI	RCATGY	2 cut(s)	33, 400
XmnI	GAANNNNTTC	1 cut(s)	419
XspI	CTAG	5 cut(s)	20, 99, 161, 279, 461

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