Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0001889

Physical Location & Seq

Genomic Coordinates Reverse (-)

5633615 .. 5635044

Gene Structure 1430 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG027900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGCGTTATTTTTCTTCTTCTCATGCACAAACACAAAATGCTACACTCAAGCAAGGCCAACCGCTACACGACCAGGGTGGTGATTATCTTGTTTCCGAAAATGGTTTGTTCAAGTTAGGCTTCTTCAGTCCTGGCAACTCAAGCATTTTCGGTTCTACAAGTAATCGTTACTTAGGAATATGGTACTACAAACTACCAAATGATCCAGATGCAGTATGGGTAGCCAATCCAGAAACTCCGATCATAGATACATCAGGAGTATTTACATTGGCTAGTGATGCAACATTGAAGCTCATTCATGGTGGAGGCCAAATATCTGTCTCAGATCCCAAACAAACAGTTTCTGGTAATGTGACCGTCTCCTTATTAGATACTGGAAATTTGGTCTTGAGAGAAGTAAATTCTAATGGAACACTTGGAGATGTTCTGTGGGAAAGCTTTGACCATCCAACCAACACATTGTTACCTGGAATGAAATTGGGCATCAATGTCGAGGCCGGACAGAATTGGACTATTTCTTCCTGGTTCAGCGATCAAATCCCTGCACCAGGTGTTTTTAGGCTTGGCGTTGATCCTGGTAGCACCAACCAATTGATCATCAGGAGGCGAGATGAAGTATACTGGAGCAGTGGGGTCTGGGAAAATGGAACCTTTCAAAATGCTCCTGAAATGACAAGAAGGGTTGATCTATTTGAGTTCACTTTTGTTTCAAACAAGGCAGATAAGTACTTTACTTATACCGTTAAAAACAGGTCTACCATTTCAAGGTGGGAACTGAATGCTTGGGGCCAAATCATGCAGTCCACTTTAACTCTCAACGGTACTACTTATTGGGAGAGCACAGAAGCTACTCCATGCACATTCAACTTGACTAATCCGGGAGCCCTGTGCATAGAGGAGAAGCCCTCTGAATGCAGGAATGGCTCGGACGGACTTGTACCAATGGAACACCAGCAGAAGGAAGCAAAACGAGCGATTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

B_lectin DUF3403 PAN_2 Pkinase Pkinase_Tyr S_locus_glycop

Protein Analysis

326

Amino Acids

36.12

Weight (kDa)

5.19

Isoelectric Point (pI)

29.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B_lectin	PF01453	72 - 175	1.4e-27	D-mannose binding lectin
S_locus_glycop	PF00954	208 - 306	1.2e-08	S-locus glycoprotein 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

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

Orthologous Genes (Group: OG0001889)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G18470
fragaria_vesca	FvH4_1g04840 FvH4_4g02170
malus_domestica	MD02G1047300.v1.1 MD02G1047500.v1.1 MD02G1047600.v1.1 MD15G1186100.v1.1
prunus_persica	Prupe.7G230600_v2.0.a1 Prupe.7G230700_v2.0.a1
pyrus_communis	pycom02g03950 pycom02g03960 pycom02g03970 pycom02g03980 pycom15g16680
rosa_chinensis	RchiOBHm_Chr2g0090491 RchiOBHm_Chr4g0389481 RchiOBHm_Chr4g0389511
rosa_laevigata	RLG00000009978 RLG00000009979 RLG00000016118
rosa_multiflora	Rmu_co8294841.1_g000001 Rmu_co8421003.1_g000001 Rmu_sc0002498.1_g000012 Rmu_sc0002498.1_g000014 Rmu_sc0004514.1_g000025 Rmu_sc0015016.1_g000001 Rmu_sc0016342.1_g000001 Rmu_sc0023528.1_g000001
rosa_roxburghii	Rroxscaffold_2G00151090 Rroxscaffold_5G00335480
rosa_rugosa	Rorug02G0008500 Rorug03G0323400 Rorug03G0323500 Rorug03G0323600
rosa_samantha	Rh2AG053900 Rh2BG053400 Rh2CG055500 Rh2DG054100 Rh4AG027900 Rh4AG028000 Rh4BG021100 Rh4CG029900 Rh4DG021500
rosa_wichuraiana	Rw2G004310 Rw4G002030 Rw4G002070

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	618, 755
AciI	CCGC	1 cut(s)	62
AclWI	GGATC	3 cut(s)	197, 320, 566
AcsI	RAATTY	2 cut(s)	379, 400
AcuI	CTGAAG	1 cut(s)	109
AdeI	CACNNNGTG	1 cut(s)	551
AfaI	GTAC	4 cut(s)	185, 728, 823, 939
AfiI	CCNNNNNNNGG	3 cut(s)	548, 765, 958
AgsI	TTSAA	6 cut(s)	112, 289, 656, 711, 765, 865
AjnI	CCWGG	6 cut(s)	72, 130, 466, 521, 547, 574
AluBI	AGCT	3 cut(s)	292, 438, 848
AluI	AGCT	3 cut(s)	292, 438, 848
Alw21I	GWGCWC	1 cut(s)	842
Alw26I	GTCTC	2 cut(s)	325, 364
AlwI	GGATC	3 cut(s)	197, 320, 566
AlwNI	CAGNNNCTG	1 cut(s)	344
AoxI	GGCC	4 cut(s)	55, 307, 495, 787
ApoI	RAATTY	2 cut(s)	379, 400
AspS9I	GGNCC	1 cut(s)	787
AsuC2I	CCSGG	1 cut(s)	879
AsuHPI	GGTGA	1 cut(s)	92
BanII	GRGCYC	1 cut(s)	886
Bbv12I	GWGCWC	1 cut(s)	842
BccI	CCATC	1 cut(s)	453
BcgI	CGANNNNNNTGC	2 cut(s)	472, 506
BciT130I	CCWGG	6 cut(s)	74, 132, 468, 523, 549, 576
BclI	TGATCA	1 cut(s)	594
BcnI	CCSGG	1 cut(s)	879
BcoDI	GTCTC	2 cut(s)	325, 364
BfaI	CTAG	1 cut(s)	273
BmcAI	AGTACT	1 cut(s)	728
Bme1390I	CCNGG	7 cut(s)	74, 132, 468, 523, 549, 576, 879
BmgT120I	GGNCC	1 cut(s)	787
BmiI	GGNNCC	3 cut(s)	649, 788, 883
BmrFI	CCNGG	7 cut(s)	74, 132, 468, 523, 549, 576, 879
BmsI	GCATC	3 cut(s)	199, 268, 492
BplI	GAGNNNNNCTC	2 cut(s)	890, 922
BpmI	CTGGAG	1 cut(s)	643
BpuEI	CTTGAG	3 cut(s)	32, 124, 409
BpuMI	CCSGG	1 cut(s)	879
BsaJI	CCNNGG	1 cut(s)	73
Bsc4I	CCNNNNNNNGG	3 cut(s)	548, 765, 958
Bse1I	ACTGG	2 cut(s)	379, 626
BseBI	CCWGG	6 cut(s)	74, 132, 468, 523, 549, 576
BseDI	CCNNGG	1 cut(s)	73
BseGI	GGATG	1 cut(s)	445
BseLI	CCNNNNNNNGG	3 cut(s)	548, 765, 958
BseMII	CTCAG	1 cut(s)	336
BseNI	ACTGG	2 cut(s)	379, 626
BseRI	GAGGAG	1 cut(s)	911
BsgI	GTGCAG	1 cut(s)	528
BshFI	GGCC	4 cut(s)	57, 309, 497, 789
BsiHKAI	GWGCWC	1 cut(s)	842
BsiSI	CCGG	2 cut(s)	498, 878
BslI	CCNNNNNNNGG	3 cut(s)	548, 765, 958
BsmAI	GTCTC	2 cut(s)	325, 364
BsmBI	CGTCTC	1 cut(s)	364
BsmI	GAATGC	2 cut(s)	784, 917
BsnI	GGCC	4 cut(s)	57, 309, 497, 789
Bsp1286I	GDGCHC	2 cut(s)	842, 886
Bsp143I	GATC	7 cut(s)	202, 240, 325, 532, 571, 594, 685
BspACI	CCGC	1 cut(s)	62
BspANI	GGCC	4 cut(s)	57, 309, 497, 789
BspCNI	CTCAG	1 cut(s)	335
BspLI	GGNNCC	3 cut(s)	649, 788, 883
BspPI	GGATC	3 cut(s)	197, 320, 566
BsrI	ACTGG	2 cut(s)	379, 626
BssECI	CCNNGG	1 cut(s)	73
BssMI	GATC	7 cut(s)	202, 240, 325, 532, 571, 594, 685
BssNAI	GTATAC	1 cut(s)	619
Bst1107I	GTATAC	1 cut(s)	619
Bst2UI	CCWGG	6 cut(s)	74, 132, 468, 523, 549, 576
Bst4CI	ACNGT	4 cut(s)	340, 358, 742, 821
BstDEI	CTNAG	2 cut(s)	172, 322
BstENI	CCTNNNNNAGG	1 cut(s)	546
BstF5I	GGATG	1 cut(s)	445
BstKTI	GATC	7 cut(s)	205, 243, 328, 535, 574, 597, 688
BstMAI	GTCTC	2 cut(s)	325, 364
BstMBI	GATC	7 cut(s)	202, 240, 325, 532, 571, 594, 685
BstMWI	GCNNNNNNNGC	4 cut(s)	141, 278, 921, 971
BstNI	CCWGG	6 cut(s)	74, 132, 468, 523, 549, 576
BstSCI	CCNGG	7 cut(s)	72, 130, 466, 521, 547, 574, 877
BstX2I	RGATCY	1 cut(s)	325
BstYI	RGATCY	1 cut(s)	325
BstZ17I	GTATAC	1 cut(s)	619
BsuRI	GGCC	4 cut(s)	57, 309, 497, 789
BtsCI	GGATG	1 cut(s)	445
BtsI	GCAGTG	1 cut(s)	634
BtsIMutI	CAGTG	1 cut(s)	634
CaiI	CAGNNNCTG	1 cut(s)	344
Cfr13I	GGNCC	1 cut(s)	787
CsiI	ACCWGGT	1 cut(s)	547
Csp6I	GTAC	4 cut(s)	184, 727, 822, 938
CviAII	CATG	4 cut(s)	23, 299, 796, 855
CviQI	GTAC	4 cut(s)	184, 727, 822, 938
DdeI	CTNAG	2 cut(s)	172, 322
DpnI	GATC	7 cut(s)	204, 242, 327, 534, 573, 596, 687
DpnII	GATC	7 cut(s)	202, 240, 325, 532, 571, 594, 685
DraIII	CACNNNGTG	1 cut(s)	551
Eco24I	GRGCYC	1 cut(s)	886
Eco57I	CTGAAG	1 cut(s)	109
EcoNI	CCTNNNNNAGG	1 cut(s)	546
EcoRII	CCWGG	6 cut(s)	72, 130, 466, 521, 547, 574
EcoT38I	GRGCYC	1 cut(s)	886
Esp3I	CGTCTC	1 cut(s)	364
FaeI	CATG	4 cut(s)	26, 302, 799, 858
FalI	AAGNNNNNCTT	2 cut(s)	104, 136
FatI	CATG	4 cut(s)	22, 298, 795, 854
FbaI	TGATCA	1 cut(s)	594
FblI	GTMKAC	2 cut(s)	618, 755
FokI	GGATG	1 cut(s)	432
FriOI	GRGCYC	1 cut(s)	886
FspBI	CTAG	1 cut(s)	273
GsuI	CTGGAG	1 cut(s)	643
HaeIII	GGCC	4 cut(s)	57, 309, 497, 789
HapII	CCGG	2 cut(s)	498, 878
Hin1II	CATG	4 cut(s)	26, 302, 799, 858
HindIII	AAGCTT	1 cut(s)	436
HpaII	CCGG	2 cut(s)	498, 878
HphI	GGTGA	1 cut(s)	92
Hpy166II	GTNNAC	4 cut(s)	619, 699, 756, 804
Hpy188I	TCNGA	5 cut(s)	97, 240, 325, 910, 928
Hpy188III	TCNNGA	6 cut(s)	206, 230, 255, 388, 601, 665
Hpy8I	GTNNAC	4 cut(s)	619, 699, 756, 804
HpyAV	CCTTC	2 cut(s)	672, 952
HpyCH4III	ACNGT	4 cut(s)	340, 358, 742, 821
HpyCH4V	TGCA	8 cut(s)	26, 212, 281, 545, 799, 858, 891, 915
HpyF10VI	GCNNNNNNNGC	4 cut(s)	141, 278, 921, 971
HpyF3I	CTNAG	2 cut(s)	172, 322
Hsp92II	CATG	4 cut(s)	26, 302, 799, 858
Ksp22I	TGATCA	1 cut(s)	594
Kzo9I	GATC	7 cut(s)	202, 240, 325, 532, 571, 594, 685
LmnI	GCTCC	3 cut(s)	624, 667, 881
LweI	GCATC	3 cut(s)	199, 268, 492
MabI	ACCWGGT	1 cut(s)	547
MaeI	CTAG	1 cut(s)	273
MaeIII	GTNAC	3 cut(s)	167, 352, 462
MalI	GATC	7 cut(s)	204, 242, 327, 534, 573, 596, 687
MboI	GATC	7 cut(s)	202, 240, 325, 532, 571, 594, 685
MboII	GAAGA	4 cut(s)	6, 9, 115, 510
MfeI	CAATTG	1 cut(s)	590
MflI	RGATCY	1 cut(s)	325
MhlI	GDGCHC	2 cut(s)	842, 886
MluCI	AATT	5 cut(s)	379, 400, 476, 505, 590
MmeI	TCCRAC	1 cut(s)	473
MnlI	CCTC	5 cut(s)	299, 487, 597, 889, 916
MseI	TTAA	3 cut(s)	744, 809, 979
MspI	CCGG	2 cut(s)	498, 878
MspR9I	CCNGG	7 cut(s)	74, 132, 468, 523, 549, 576, 879
MunI	CAATTG	1 cut(s)	590
Mva1269I	GAATGC	2 cut(s)	784, 917
MvaI	CCWGG	6 cut(s)	74, 132, 468, 523, 549, 576
MwoI	GCNNNNNNNGC	4 cut(s)	141, 278, 921, 971
NciI	CCSGG	1 cut(s)	879
NdeII	GATC	7 cut(s)	202, 240, 325, 532, 571, 594, 685
NlaIII	CATG	4 cut(s)	26, 302, 799, 858
NlaIV	GGNNCC	3 cut(s)	649, 788, 883
NmuCI	GTSAC	1 cut(s)	352
PctI	GAATGC	2 cut(s)	784, 917
PfoI	TCCNGGA	1 cut(s)	877
Psp6I	CCWGG	6 cut(s)	72, 130, 466, 521, 547, 574
PspGI	CCWGG	6 cut(s)	72, 130, 466, 521, 547, 574
PspN4I	GGNNCC	3 cut(s)	649, 788, 883
PspPI	GGNCC	1 cut(s)	787
PstNI	CAGNNNCTG	1 cut(s)	344
PsuI	RGATCY	1 cut(s)	325
RsaI	GTAC	4 cut(s)	185, 728, 823, 939
RsaNI	GTAC	4 cut(s)	184, 727, 822, 938
SaqAI	TTAA	3 cut(s)	744, 809, 979
Sau3AI	GATC	7 cut(s)	202, 240, 325, 532, 571, 594, 685
Sau96I	GGNCC	1 cut(s)	787
ScaI	AGTACT	1 cut(s)	728
ScrFI	CCNGG	7 cut(s)	74, 132, 468, 523, 549, 576, 879
SduI	GDGCHC	2 cut(s)	842, 886
SetI	ASST	8 cut(s)	294, 440, 469, 553, 653, 755, 770, 850
SexAI	ACCWGGT	1 cut(s)	547
SfaNI	GCATC	3 cut(s)	199, 268, 492
SmlI	CTYRAG	3 cut(s)	47, 139, 388
SmoI	CTYRAG	3 cut(s)	47, 139, 388
Sse9I	AATT	5 cut(s)	379, 400, 476, 505, 590
SsiI	CCGC	1 cut(s)	62
SspMI	CTAG	1 cut(s)	273
StyD4I	CCNGG	7 cut(s)	72, 130, 466, 521, 547, 574, 877
TaaI	ACNGT	4 cut(s)	340, 358, 742, 821
TaqI	TCGA	1 cut(s)	492
TasI	AATT	5 cut(s)	379, 400, 476, 505, 590
TatI	WGTACW	1 cut(s)	726
Tru1I	TTAA	3 cut(s)	744, 809, 979
Tru9I	TTAA	3 cut(s)	744, 809, 979
TscAI	CASTG	1 cut(s)	634
TseFI	GTSAC	1 cut(s)	352
Tsp45I	GTSAC	1 cut(s)	352
TspDTI	ATGAA	3 cut(s)	287, 488, 627
TspGWI	ACGGA	1 cut(s)	945
TspRI	CASTG	1 cut(s)	634
XagI	CCTNNNNNAGG	1 cut(s)	546
XapI	RAATTY	2 cut(s)	379, 400
XcmI	CCANNNNNNNNNTGG	1 cut(s)	213
XmiI	GTMKAC	2 cut(s)	618, 755
XspI	CTAG	1 cut(s)	273
ZrmI	AGTACT	1 cut(s)	728

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