Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0004142

Physical Location & Seq

Genomic Coordinates Forward (+)

55708820 .. 55742936

Gene Structure 34117 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG332400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 837 bp

ATGGAAACTCACACACCAGTAGTGCTTCCCCCTAGATCTTCAAAGTATGCTAATATTGGGCTGAGAGTCCTCACCGCAACTTTGCTCTTCATGTCATTGGTCATCCTTGTCACCAATGTTAGGTCAAATTATCTGTACACGAAGAAGACACTTCACTTCTATGATCGTGTCGGATACCGGTACATGGCTTCCGCGGTTGTTATTGGACTTGCATATTCGATCTTGCAAACTGTAATTGCAGTTATCTGCATCAAAAAGTACGGTCAAGGAAACATCATCTTACTTGACTTCTACGGTGACAAGGTCGTATCAACTATAATAGCTACTGGAGCTGTTGCAGGGTTTGCTATGACTGGGGAACTTCAGAGAGTCATTGGAAAAGATTGGAGTGATTACTATTACAAATATTTCAGAACGTCTCACGCAGCAGGTGGACTTGCCTTCCTCGGATTTGTCTGCGCTTTCATATCATCCGTCATCTCCAAACTAAGTATGGATCAGCATATGTATTCAGAAAAACCAGCAGTGTTTACCCCCAGATTTCTAAAGATTTCTGCTATTGGGCTGAGGATCTTCACCACCATTTTCCTCTTTCTGTCACTCATCATCCTCATCACCAAAGTTACTACAGACGTGGTGGAAGTTACTGCAGACGGGGAGGCCAAGGATGACACACTTCACTTTTATGACCTTGTTGGATACCGATACATGACTGCCACAATTATTCTTGGATGTGCATATTCAATCTGGCAAACCGTGACAACAGTTATCCGCCTCAAGAAAGGATATGAGGGGAACCTTGTACTTGAATACTATGGGGATAAGGGCCCTGGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005623 GO:0005886 GO:0016020 GO:0044464 GO:0048037 GO:0051536 GO:0051540 GO:0071944

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF588

Protein Analysis

278

Amino Acids

31.01

Weight (kDa)

9.21

Isoelectric Point (pI)

26.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CASP_dom	PF04535	13 - 153	2.4e-18	Casparian strip membrane protein domain
CASP_dom	PF04535	182 - 262	1e-08	Casparian strip membrane protein domain

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: OG0004142)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G39518 AT2G39530
fragaria_vesca	FvH4_7g22200 FvH4_7g22201 FvH4_7g22210
malus_domestica	MD01G1126800.v1.1
prunus_persica	Prupe.2G233700_v2.0.a1 Prupe.2G233800_v2.0.a1 Prupe.2G233900_v2.0.a1 Prupe.2G234000_v2.0.a1
pyrus_communis	pycom01g15250
rosa_chinensis	RchiOBHm_Chr1g0366551 RchiOBHm_Chr1g0366591
rosa_laevigata	RLG00000027335 RLG00000027336 RLG00000027337
rosa_multiflora	Rmu_ssc0000250.1_g000028
rosa_roxburghii	Rroxscaffold_4G00289830 Rroxscaffold_4G00290090
rosa_rugosa	Rorug01G0330700 Rorug01G0330800
rosa_samantha	Rh1AG338700 Rh1AG339000 Rh1AG339100 Rh1BG300400 Rh1BG300700 Rh1CG315500 Rh1CG315600 Rh1DG332200 Rh1DG332400
rosa_wichuraiana	Rw1G030010 Rw1G030020 Rw1G030030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	419
Acc36I	ACCTGC	1 cut(s)	419
AccII	CGCG	1 cut(s)	194
AciI	CCGC	4 cut(s)	75, 192, 194, 772
AclWI	GGATC	2 cut(s)	504, 578
AcuI	CTGAAG	1 cut(s)	347
AfaI	GTAC	4 cut(s)	137, 182, 260, 804
AfiI	CCNNNNNNNGG	2 cut(s)	120, 184
AgeI	ACCGGT	1 cut(s)	177
AgsI	TTSAA	3 cut(s)	42, 744, 809
AjiI	CACGTC	1 cut(s)	634
AjnI	CCWGG	1 cut(s)	829
AluBI	AGCT	2 cut(s)	323, 332
AluI	AGCT	2 cut(s)	323, 332
Alw26I	GTCTC	1 cut(s)	423
AlwI	GGATC	2 cut(s)	504, 578
AoxI	GGCC	2 cut(s)	660, 826
ApaI	GGGCCC	1 cut(s)	830
ApeKI	GCWGC	1 cut(s)	425
AsiGI	ACCGGT	1 cut(s)	177
AspLEI	GCGC	1 cut(s)	461
AspS9I	GGNCC	2 cut(s)	826, 827
AsuHPI	GGTGA	5 cut(s)	64, 103, 308, 568, 607
BaeGI	GKGCMC	1 cut(s)	830
BanII	GRGCYC	1 cut(s)	830
BbsI	GAAGAC	1 cut(s)	152
BbvCI	CCTCAGC	1 cut(s)	566
BbvI	GCAGC	1 cut(s)	437
BciT130I	CCWGG	1 cut(s)	831
BciVI	GTATCC	2 cut(s)	167, 692
BcoDI	GTCTC	1 cut(s)	423
BfaI	CTAG	1 cut(s)	33
BfmI	CTRYAG	2 cut(s)	627, 648
BfuAI	ACCTGC	1 cut(s)	419
BfuI	GTATCC	2 cut(s)	167, 692
BglII	AGATCT	1 cut(s)	35
BisI	GCNGC	1 cut(s)	426
BlsI	GCNGC	1 cut(s)	427
Bme1390I	CCNGG	1 cut(s)	831
BmgBI	CACGTC	1 cut(s)	634
BmgT120I	GGNCC	2 cut(s)	826, 827
BmiI	GGNNCC	2 cut(s)	797, 828
BmrFI	CCNGG	1 cut(s)	831
BmrI	ACTGGG	1 cut(s)	363
BmsI	GCATC	1 cut(s)	258
BmuI	ACTGGG	1 cut(s)	363
BpiI	GAAGAC	1 cut(s)	152
BpmI	CTGGAG	1 cut(s)	348
Bpu10I	CCTNAGC	1 cut(s)	566
BpuEI	CTTGAG	1 cut(s)	761
BsaJI	CCNNGG	4 cut(s)	192, 445, 663, 829
BsaWI	WCCGGW	1 cut(s)	177
Bsc4I	CCNNNNNNNGG	2 cut(s)	120, 184
Bse118I	RCCGGY	1 cut(s)	177
Bse1I	ACTGG	3 cut(s)	17, 331, 358
BseBI	CCWGG	1 cut(s)	831
BseDI	CCNNGG	4 cut(s)	192, 445, 663, 829
BseGI	GGATG	5 cut(s)	102, 470, 606, 673, 737
BseLI	CCNNNNNNNGG	2 cut(s)	120, 184
BseMII	CTCAG	2 cut(s)	53, 557
BseNI	ACTGG	3 cut(s)	17, 331, 358
BseSI	GKGCMC	1 cut(s)	830
BseXI	GCAGC	1 cut(s)	437
Bsh1236I	CGCG	1 cut(s)	194
BshFI	GGCC	2 cut(s)	662, 828
BshTI	ACCGGT	1 cut(s)	177
BsiSI	CCGG	1 cut(s)	178
BslI	CCNNNNNNNGG	2 cut(s)	120, 184
BsmAI	GTCTC	1 cut(s)	423
BsmBI	CGTCTC	1 cut(s)	423
BsnI	GGCC	2 cut(s)	662, 828
Bsp120I	GGGCCC	1 cut(s)	826
Bsp1286I	GDGCHC	1 cut(s)	830
Bsp1407I	TGTACA	1 cut(s)	135
Bsp143I	GATC	5 cut(s)	35, 163, 219, 496, 570
BspACI	CCGC	4 cut(s)	75, 192, 194, 772
BspANI	GGCC	2 cut(s)	662, 828
BspCNI	CTCAG	2 cut(s)	54, 558
BspFNI	CGCG	1 cut(s)	194
BspLI	GGNNCC	2 cut(s)	797, 828
BspMAI	CTGCAG	1 cut(s)	652
BspMI	ACCTGC	1 cut(s)	419
BspPI	GGATC	2 cut(s)	504, 578
BspQI	GCTCTTC	1 cut(s)	92
BsrFI	RCCGGY	1 cut(s)	177
BsrGI	TGTACA	1 cut(s)	135
BsrI	ACTGG	3 cut(s)	17, 331, 358
BssAI	RCCGGY	1 cut(s)	177
BssECI	CCNNGG	4 cut(s)	192, 445, 663, 829
BssMI	GATC	5 cut(s)	35, 163, 219, 496, 570
BssT1I	CCWWGG	1 cut(s)	663
Bst2UI	CCWGG	1 cut(s)	831
Bst4CI	ACNGT	5 cut(s)	232, 263, 296, 757, 766
Bst6I	CTCTTC	1 cut(s)	92
BstAPI	GCANNNNNTGC	1 cut(s)	344
BstAUI	TGTACA	1 cut(s)	135
BstDEI	CTNAG	3 cut(s)	62, 488, 566
BstDSI	CCRYGG	1 cut(s)	192
BstF5I	GGATG	5 cut(s)	102, 470, 606, 673, 737
BstFNI	CGCG	1 cut(s)	194
BstHHI	GCGC	1 cut(s)	461
BstKTI	GATC	5 cut(s)	38, 166, 222, 499, 573
BstMAI	GTCTC	1 cut(s)	423
BstMBI	GATC	5 cut(s)	35, 163, 219, 496, 570
BstMWI	GCNNNNNNNGC	2 cut(s)	329, 344
BstNI	CCWGG	1 cut(s)	831
BstSCI	CCNGG	1 cut(s)	829
BstSFI	CTRYAG	2 cut(s)	627, 648
BstSLI	GKGCMC	1 cut(s)	830
BstUI	CGCG	1 cut(s)	194
BstV1I	GCAGC	1 cut(s)	437
BstV2I	GAAGAC	1 cut(s)	152
BstX2I	RGATCY	2 cut(s)	35, 570
BstYI	RGATCY	2 cut(s)	35, 570
BsuI	GTATCC	2 cut(s)	167, 692
BsuRI	GGCC	2 cut(s)	662, 828
BtgI	CCRYGG	1 cut(s)	192
BtrI	CACGTC	1 cut(s)	634
BtsCI	GGATG	5 cut(s)	102, 470, 606, 673, 737
BtsI	GCAGTG	1 cut(s)	531
BtsIMutI	CAGTG	1 cut(s)	531
BveI	ACCTGC	1 cut(s)	419
CfoI	GCGC	1 cut(s)	461
Cfr10I	RCCGGY	1 cut(s)	177
Cfr13I	GGNCC	2 cut(s)	826, 827
Cfr42I	CCGCGG	1 cut(s)	195
Csp6I	GTAC	4 cut(s)	136, 181, 259, 803
CspAI	ACCGGT	1 cut(s)	177
CviAII	CATG	3 cut(s)	91, 184, 709
CviJI	RGCY	7 cut(s)	61, 188, 323, 332, 565, 662, 828
CviKI_1	RGCY	7 cut(s)	61, 188, 323, 332, 565, 662, 828
CviQI	GTAC	4 cut(s)	136, 181, 259, 803
DdeI	CTNAG	3 cut(s)	62, 488, 566
DpnI	GATC	5 cut(s)	37, 165, 221, 498, 572
DpnII	GATC	5 cut(s)	35, 163, 219, 496, 570
Eam1104I	CTCTTC	1 cut(s)	92
EarI	CTCTTC	1 cut(s)	92
EciI	GGCGGA	1 cut(s)	761
Eco130I	CCWWGG	1 cut(s)	663
Eco24I	GRGCYC	1 cut(s)	830
Eco57I	CTGAAG	1 cut(s)	347
EcoO109I	RGGNCCY	2 cut(s)	826, 827
EcoRII	CCWGG	1 cut(s)	829
EcoT14I	CCWWGG	1 cut(s)	663
EcoT38I	GRGCYC	1 cut(s)	830
ErhI	CCWWGG	1 cut(s)	663
Esp3I	CGTCTC	1 cut(s)	423
FaeI	CATG	3 cut(s)	94, 187, 712
FatI	CATG	3 cut(s)	90, 183, 708
FauNDI	CATATG	1 cut(s)	504
Fnu4HI	GCNGC	1 cut(s)	426
FokI	GGATG	5 cut(s)	89, 457, 593, 680, 744
FriOI	GRGCYC	1 cut(s)	830
Fsp4HI	GCNGC	1 cut(s)	426
FspBI	CTAG	1 cut(s)	33
GlaI	GCGC	1 cut(s)	460
GluI	GCNGC	1 cut(s)	426
GsuI	CTGGAG	1 cut(s)	348
HaeIII	GGCC	2 cut(s)	662, 828
HapII	CCGG	1 cut(s)	178
HhaI	GCGC	1 cut(s)	461
Hin1II	CATG	3 cut(s)	94, 187, 712
Hin6I	GCGC	1 cut(s)	459
HinP1I	GCGC	1 cut(s)	459
HinfI	GANTC	2 cut(s)	66, 369
HpaII	CCGG	1 cut(s)	178
HphI	GGTGA	5 cut(s)	64, 103, 308, 568, 607
Hpy166II	GTNNAC	3 cut(s)	138, 434, 531
Hpy188I	TCNGA	5 cut(s)	173, 366, 413, 449, 514
Hpy188III	TCNNGA	1 cut(s)	778
Hpy8I	GTNNAC	3 cut(s)	138, 434, 531
HpyAV	CCTTC	1 cut(s)	451
HpyCH4III	ACNGT	5 cut(s)	232, 263, 296, 757, 766
HpyCH4IV	ACGT	2 cut(s)	416, 633
HpyCH4V	TGCA	7 cut(s)	212, 226, 239, 249, 338, 650, 737
HpyF10VI	GCNNNNNNNGC	2 cut(s)	329, 344
HpyF3I	CTNAG	3 cut(s)	62, 488, 566
HpySE526I	ACGT	2 cut(s)	416, 633
Hsp92II	CATG	3 cut(s)	94, 187, 712
HspAI	GCGC	1 cut(s)	459
KspI	CCGCGG	1 cut(s)	195
Kzo9I	GATC	5 cut(s)	35, 163, 219, 496, 570
LguI	GCTCTTC	1 cut(s)	92
LmnI	GCTCC	1 cut(s)	329
Lsp1109I	GCAGC	1 cut(s)	437
LweI	GCATC	1 cut(s)	258
MaeI	CTAG	1 cut(s)	33
MaeII	ACGT	2 cut(s)	416, 633
MaeIII	GTNAC	6 cut(s)	109, 296, 597, 622, 643, 757
MalI	GATC	5 cut(s)	37, 165, 221, 498, 572
MboI	GATC	5 cut(s)	35, 163, 219, 496, 570
MboII	GAAGA	5 cut(s)	30, 79, 154, 157, 565
MflI	RGATCY	2 cut(s)	35, 570
MhlI	GDGCHC	1 cut(s)	830
MluCI	AATT	3 cut(s)	127, 234, 720
MlyI	GAGTC	2 cut(s)	75, 378
MmeI	TCCRAC	2 cut(s)	151, 676
MnlI	CCTC	8 cut(s)	80, 455, 561, 599, 620, 652, 784, 785
MseI	TTAA	1 cut(s)	835
MslI	CAYNNNNRTG	2 cut(s)	159, 684
MspA1I	CMGCKG	1 cut(s)	194
MspI	CCGG	1 cut(s)	178
MspR9I	CCNGG	1 cut(s)	831
MvaI	CCWGG	1 cut(s)	831
MvnI	CGCG	1 cut(s)	194
MwoI	GCNNNNNNNGC	2 cut(s)	329, 344
NdeI	CATATG	1 cut(s)	504
NdeII	GATC	5 cut(s)	35, 163, 219, 496, 570
NlaIII	CATG	3 cut(s)	94, 187, 712
NlaIV	GGNNCC	2 cut(s)	797, 828
NmuCI	GTSAC	4 cut(s)	109, 296, 597, 757
PaqCI	CACCTGC	1 cut(s)	419
PciSI	GCTCTTC	1 cut(s)	92
PflFI	GACNNNGTC	1 cut(s)	302
PinAI	ACCGGT	1 cut(s)	177
PkrI	GCNGC	1 cut(s)	427
PleI	GAGTC	2 cut(s)	74, 377
PpsI	GAGTC	2 cut(s)	74, 377
Psp6I	CCWGG	1 cut(s)	829
PspGI	CCWGG	1 cut(s)	829
PspN4I	GGNNCC	2 cut(s)	797, 828
PspOMI	GGGCCC	1 cut(s)	826
PspPI	GGNCC	2 cut(s)	826, 827
PstI	CTGCAG	1 cut(s)	652
PsuI	RGATCY	2 cut(s)	35, 570
PsyI	GACNNNGTC	1 cut(s)	302
RsaI	GTAC	4 cut(s)	137, 182, 260, 804
RsaNI	GTAC	4 cut(s)	136, 181, 259, 803
RseI	CAYNNNNRTG	2 cut(s)	159, 684
SacII	CCGCGG	1 cut(s)	195
SapI	GCTCTTC	1 cut(s)	92
SaqAI	TTAA	1 cut(s)	835
SatI	GCNGC	1 cut(s)	426
Sau3AI	GATC	5 cut(s)	35, 163, 219, 496, 570
Sau96I	GGNCC	2 cut(s)	826, 827
SchI	GAGTC	2 cut(s)	75, 378
ScrFI	CCNGG	1 cut(s)	831
SduI	GDGCHC	1 cut(s)	830
SetI	ASST	9 cut(s)	125, 306, 325, 334, 419, 433, 636, 693, 801
SfaNI	GCATC	1 cut(s)	258
SfcI	CTRYAG	2 cut(s)	627, 648
Sfr303I	CCGCGG	1 cut(s)	195
SgrBI	CCGCGG	1 cut(s)	195
SmiMI	CAYNNNNRTG	2 cut(s)	159, 684
SmlI	CTYRAG	1 cut(s)	776
SmoI	CTYRAG	1 cut(s)	776
Sse9I	AATT	3 cut(s)	127, 234, 720
SsiI	CCGC	4 cut(s)	75, 192, 194, 772
SspI	AATATT	2 cut(s)	55, 407
SspMI	CTAG	1 cut(s)	33
StyD4I	CCNGG	1 cut(s)	829
StyI	CCWWGG	1 cut(s)	663
TaaI	ACNGT	5 cut(s)	232, 263, 296, 757, 766
TaiI	ACGT	2 cut(s)	419, 636
TaqI	TCGA	1 cut(s)	218
TasI	AATT	3 cut(s)	127, 234, 720
TatI	WGTACW	2 cut(s)	135, 802
Tru1I	TTAA	1 cut(s)	835
Tru9I	TTAA	1 cut(s)	835
TscAI	CASTG	1 cut(s)	531
TseFI	GTSAC	4 cut(s)	109, 296, 597, 757
TseI	GCWGC	1 cut(s)	425
Tsp45I	GTSAC	4 cut(s)	109, 296, 597, 757
TspDTI	ATGAA	2 cut(s)	79, 454
TspGWI	ACGGA	1 cut(s)	463
TspRI	CASTG	1 cut(s)	531
Tth111I	GACNNNGTC	1 cut(s)	302
XcmI	CCANNNNNNNNNTGG	1 cut(s)	490
XspI	CTAG	1 cut(s)	33

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