Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0005429

Physical Location & Seq

Genomic Coordinates Reverse (-)

60256861 .. 60260586

Gene Structure 3726 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000035070

Sequence Viewer

CDS Protein Promoter (2k)

Length: 954 bp

ATGATTCTACTAAACACCTTTTCTCATATTCATGCATTAGCAGAGTTGTATGTCATTGATGGGCAATATGAGAAAGCCTTTTCACTACATGCGGATGTAGTCCCACTGATGATGTTGGATTGCAAGCACGCCGTTCCTTTATTGATTCAAAATAAGGACTTGATTACTCCATCTCACAAGTTGTCAAACAACTTTCGAATGCGGGTAGAGCTTTATGCAAACTATGATTCAAAGATGTTGCTTCCTTTTCTTCGTAGTAGTCAACATTATACACTTGAGAAGGCATATGAAATTTGCATCAGAAATGATCTTGTAAAGGAGCAAGTTTTCATTCTTGGAAGAATGGGAAATGCAAAACAAGCCCTTGCTATAATCATTAATAAACTAGGGGACATTGAAGAGGCTGTAGAATTTGTGAGCGTGCAACTTGATGATGAACTATGGGTGGAATTGATCCAGCAGTGTCTTCATAAACCTGAGATGGTCGGCGTGCTATTGGAGCCCACTGTTGGAAATCTTGATCCTCTTTATATTGTGAATATGGTTCCCAATGGACTGGAGATTCCTCTGCTCAGGGATAGGCTAGTCAAAATTATCACCAATTACAGGACTGAAACATCTCTAAGACATGGGTGTAATATCATCCTTAAGGCTGATTTTGTGAACCTCTTGGTCAAACACTACAATAAGACAAGACATGGAATTTACTTGAGCAATGACGAAGATGAGAGTGTTAATGTCATTGTTTTCTTTTGCTGTCATGCTTATCACATGACTTGTCTTATGGATTCCACCTACACTAGTGGAATGAATGAGAGTGGGGTCACTTCCCCAGAGAAAGTAACAGATTATGGGTATGATGATAGTGATGTGGATGATGATGGTGATGATGGTCCCCAATCGGGTGGCTCTCGCATGCGTTGTATCCCATGTACTACTGCTAGTGGAACTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005770 GO:0006605 GO:0006623 GO:0006810 GO:0006886 GO:0006996 GO:0007033 GO:0007034 GO:0008104 GO:0008150 GO:0009987 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016043 GO:0019899 GO:0030897 GO:0031338 GO:0031410 GO:0031982 GO:0032879 GO:0032991 GO:0033036 GO:0033043 GO:0033263 GO:0033365 GO:0034613 GO:0035542 GO:0042144 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043254 GO:0044087 GO:0044422 GO:0044424 GO:0044425 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0048284 GO:0050789 GO:0050794 GO:0051020 GO:0051049 GO:0051128 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0060627 GO:0061024 GO:0061025 GO:0065007 GO:0070727 GO:0071702 GO:0071705 GO:0071840 GO:0072594 GO:0072665 GO:0072666 GO:0097576 GO:0097708 GO:0098796 GO:0099023

KEGG Pathways

Metabolic & Signaling

ko04138 map04138

Pfam Domains

Protein Families

Clathrin

Protein Analysis

318

Amino Acids

35.85

Weight (kDa)

5.1

Isoelectric Point (pI)

42.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_Vps41	PF23556	63 - 180	1.4e-50	Vps41 TPR-like region
Clathrin	PF00637	70 - 158	5e-08	Region in Clathrin and VPS
zf-RING_Vps41	PF23555	239 - 274	3.8e-10	Vps41 C-terminal RING finger domain
zf_RING_Vps8	PF23412	240 - 269	2.6e-06	Vps8 RING zinc finger

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

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Publication-ready

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Orthologous Genes (Group: OG0005429)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08190
fragaria_vesca	FvH4_3g30370 FvH4_3g30370 FvH4_3g30370 FvH4_3g30370 FvH4_3g30370
malus_domestica	MD03G1129800.v1.1 MD11G1151700.v1.1
prunus_persica	Prupe.6G114800_v2.0.a1 Prupe.6G114800_v2.0.a1
pyrus_communis	pycom11g12380 pycom11g12390
rosa_chinensis	RchiOBHm_Chr5g0056311
rosa_laevigata	RLG00000035067 RLG00000035070 RLG00000035077 RLG00000035080 RLG00000035082
rosa_multiflora	Rmu_sc0000680.1_g000003
rosa_roxburghii	Rroxscaffold_1G00024010
rosa_rugosa	Rorug05G0298600 Rorug05G0298700 Rorug05G0298800
rosa_samantha	Rh5AG369600 Rh5BG380500 Rh5CG404000 Rh5DG393600
rosa_wichuraiana	Rw0G004390 Rw0G012630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	92, 202
AclWI	GGATC	2 cut(s)	448, 515
AcsI	RAATTY	3 cut(s)	291, 410, 702
AfaI	GTAC	1 cut(s)	934
AfiI	CCNNNNNNNGG	3 cut(s)	509, 606, 902
AflII	CTTAAG	1 cut(s)	647
AgsI	TTSAA	3 cut(s)	149, 231, 398
AhlI	ACTAGT	1 cut(s)	800
AluBI	AGCT	1 cut(s)	211
AluI	AGCT	1 cut(s)	211
AlwI	GGATC	2 cut(s)	448, 515
ApoI	RAATTY	3 cut(s)	291, 410, 702
AseI	ATTAAT	1 cut(s)	378
AspS9I	GGNCC	1 cut(s)	893
AsuHPI	GGTGA	2 cut(s)	589, 896
AsuII	TTCGAA	1 cut(s)	196
AvaII	GGWCC	1 cut(s)	893
BanII	GRGCYC	1 cut(s)	504
BbsI	GAAGAC	1 cut(s)	458
BccI	CCATC	5 cut(s)	53, 178, 475, 875, 884
BceAI	ACGGC	1 cut(s)	116
BciVI	GTATCC	1 cut(s)	935
BcuI	ACTAGT	1 cut(s)	800
BfaI	CTAG	4 cut(s)	386, 584, 801, 942
BfmI	CTRYAG	1 cut(s)	405
BfrI	CTTAAG	1 cut(s)	647
BfuI	GTATCC	1 cut(s)	935
Bme18I	GGWCC	1 cut(s)	893
BmgT120I	GGNCC	1 cut(s)	893
BmiI	GGNNCC	3 cut(s)	501, 546, 895
BmsI	GCATC	1 cut(s)	306
BpiI	GAAGAC	1 cut(s)	458
BpmI	CTGGAG	1 cut(s)	578
Bpu10I	CCTNAGC	1 cut(s)	572
Bpu14I	TTCGAA	1 cut(s)	196
BpuEI	CTTGAG	2 cut(s)	296, 730
Bsc4I	CCNNNNNNNGG	3 cut(s)	509, 606, 902
Bse1I	ACTGG	1 cut(s)	561
Bse3DI	GCAATG	1 cut(s)	721
BseGI	GGATG	3 cut(s)	100, 642, 880
BseLI	CCNNNNNNNGG	3 cut(s)	509, 606, 902
BseMI	GCAATG	1 cut(s)	721
BseMII	CTCAG	2 cut(s)	468, 586
BseNI	ACTGG	1 cut(s)	561
BslFI	GGGAC	3 cut(s)	86, 404, 879
BslI	CCNNNNNNNGG	3 cut(s)	509, 606, 902
BsmFI	GGGAC	3 cut(s)	86, 404, 879
BsmI	GAATGC	1 cut(s)	204
Bsp119I	TTCGAA	1 cut(s)	196
Bsp1286I	GDGCHC	1 cut(s)	504
Bsp143I	GATC	3 cut(s)	307, 453, 520
BspACI	CCGC	2 cut(s)	92, 202
BspCNI	CTCAG	2 cut(s)	469, 585
BspLI	GGNNCC	3 cut(s)	501, 546, 895
BspPI	GGATC	2 cut(s)	448, 515
BspT104I	TTCGAA	1 cut(s)	196
BspTI	CTTAAG	1 cut(s)	647
BsrDI	GCAATG	1 cut(s)	721
BsrI	ACTGG	1 cut(s)	561
BssMI	GATC	3 cut(s)	307, 453, 520
Bst4CI	ACNGT	1 cut(s)	508
Bst6I	CTCTTC	1 cut(s)	393
BstAFI	CTTAAG	1 cut(s)	647
BstBI	TTCGAA	1 cut(s)	196
BstC8I	GCNNGC	5 cut(s)	125, 129, 422, 491, 917
BstDEI	CTNAG	4 cut(s)	477, 572, 623, 951
BstF5I	GGATG	3 cut(s)	100, 642, 880
BstKTI	GATC	3 cut(s)	310, 456, 523
BstMBI	GATC	3 cut(s)	307, 453, 520
BstMWI	GCNNNNNNNGC	3 cut(s)	208, 359, 499
BstNSI	RCATGY	2 cut(s)	92, 919
BstSFI	CTRYAG	1 cut(s)	405
BstV2I	GAAGAC	1 cut(s)	458
BstXI	CCANNNNNNTGG	2 cut(s)	556, 905
BsuI	GTATCC	1 cut(s)	935
BtsCI	GGATG	3 cut(s)	100, 642, 880
BtsI	GCAGTG	1 cut(s)	467
BtsIMutI	CAGTG	3 cut(s)	104, 467, 504
Cac8I	GCNNGC	5 cut(s)	125, 129, 422, 491, 917
Cfr13I	GGNCC	1 cut(s)	893
Csp6I	GTAC	1 cut(s)	933
CviAII	CATG	8 cut(s)	32, 89, 629, 698, 761, 772, 916, 930
CviJI	RGCY	8 cut(s)	77, 211, 362, 404, 502, 583, 653, 909
CviKI_1	RGCY	8 cut(s)	77, 211, 362, 404, 502, 583, 653, 909
CviQI	GTAC	1 cut(s)	933
DdeI	CTNAG	4 cut(s)	477, 572, 623, 951
DpnI	GATC	3 cut(s)	309, 455, 522
DpnII	GATC	3 cut(s)	307, 453, 520
Eam1104I	CTCTTC	1 cut(s)	393
EarI	CTCTTC	1 cut(s)	393
Eco24I	GRGCYC	1 cut(s)	504
Eco47I	GGWCC	1 cut(s)	893
EcoT22I	ATGCAT	1 cut(s)	37
EcoT38I	GRGCYC	1 cut(s)	504
FaeI	CATG	8 cut(s)	35, 92, 632, 701, 764, 775, 919, 933
FaqI	GGGAC	3 cut(s)	86, 404, 879
FatI	CATG	8 cut(s)	31, 88, 628, 697, 760, 771, 915, 929
FauI	CCCGC	1 cut(s)	195
FauNDI	CATATG	1 cut(s)	286
FokI	GGATG	3 cut(s)	107, 629, 887
FriOI	GRGCYC	1 cut(s)	504
FspBI	CTAG	4 cut(s)	386, 584, 801, 942
GsuI	CTGGAG	1 cut(s)	578
Hin1II	CATG	8 cut(s)	35, 92, 632, 701, 764, 775, 919, 933
HincII	GTYRAC	1 cut(s)	263
HindII	GTYRAC	1 cut(s)	263
HinfI	GANTC	5 cut(s)	4, 145, 227, 562, 788
HphI	GGTGA	2 cut(s)	589, 896
Hpy166II	GTNNAC	2 cut(s)	263, 664
Hpy188I	TCNGA	1 cut(s)	302
Hpy188III	TCNNGA	1 cut(s)	518
Hpy8I	GTNNAC	2 cut(s)	263, 664
HpyAV	CCTTC	1 cut(s)	274
HpyCH4III	ACNGT	1 cut(s)	508
HpyCH4V	TGCA	6 cut(s)	35, 123, 218, 297, 353, 424
HpyF10VI	GCNNNNNNNGC	3 cut(s)	208, 359, 499
HpyF3I	CTNAG	4 cut(s)	477, 572, 623, 951
Hsp92II	CATG	8 cut(s)	35, 92, 632, 701, 764, 775, 919, 933
Kzo9I	GATC	3 cut(s)	307, 453, 520
LmnI	GCTCC	2 cut(s)	319, 499
LpnPI	CCDG	6 cut(s)	470, 489, 542, 559, 592, 846
LweI	GCATC	1 cut(s)	306
MaeI	CTAG	4 cut(s)	386, 584, 801, 942
MaeIII	GTNAC	2 cut(s)	823, 841
MalI	GATC	3 cut(s)	309, 455, 522
MboI	GATC	3 cut(s)	307, 453, 520
MboII	GAAGA	5 cut(s)	242, 351, 410, 458, 734
MhlI	GDGCHC	1 cut(s)	504
MluCI	AATT	6 cut(s)	291, 410, 449, 591, 601, 702
MmeI	TCCRAC	2 cut(s)	96, 490
MnlI	CCTC	4 cut(s)	394, 534, 576, 677
Mph1103I	ATGCAT	1 cut(s)	37
MseI	TTAA	3 cut(s)	378, 648, 735
MslI	CAYNNNNRTG	2 cut(s)	30, 93
MspCI	CTTAAG	1 cut(s)	647
Mva1269I	GAATGC	1 cut(s)	204
MwoI	GCNNNNNNNGC	3 cut(s)	208, 359, 499
NdeI	CATATG	1 cut(s)	286
NdeII	GATC	3 cut(s)	307, 453, 520
NlaIII	CATG	8 cut(s)	35, 92, 632, 701, 764, 775, 919, 933
NlaIV	GGNNCC	3 cut(s)	501, 546, 895
NmuCI	GTSAC	1 cut(s)	823
NsiI	ATGCAT	1 cut(s)	37
NspI	RCATGY	2 cut(s)	92, 919
NspV	TTCGAA	1 cut(s)	196
PaeI	GCATGC	1 cut(s)	919
PctI	GAATGC	1 cut(s)	204
PfeI	GAWTC	5 cut(s)	4, 145, 227, 562, 788
PshBI	ATTAAT	1 cut(s)	378
PspN4I	GGNNCC	3 cut(s)	501, 546, 895
PspPI	GGNCC	1 cut(s)	893
RsaI	GTAC	1 cut(s)	934
RsaNI	GTAC	1 cut(s)	933
RseI	CAYNNNNRTG	2 cut(s)	30, 93
SaqAI	TTAA	3 cut(s)	378, 648, 735
Sau3AI	GATC	3 cut(s)	307, 453, 520
Sau96I	GGNCC	1 cut(s)	893
SduI	GDGCHC	1 cut(s)	504
SetI	ASST	5 cut(s)	20, 213, 478, 669, 797
SfaNI	GCATC	1 cut(s)	306
SfcI	CTRYAG	1 cut(s)	405
SfuI	TTCGAA	1 cut(s)	196
SinI	GGWCC	1 cut(s)	893
SmiMI	CAYNNNNRTG	2 cut(s)	30, 93
SmlI	CTYRAG	3 cut(s)	275, 647, 709
SmoI	CTYRAG	3 cut(s)	275, 647, 709
SpeI	ACTAGT	1 cut(s)	800
SphI	GCATGC	1 cut(s)	919
Sse9I	AATT	6 cut(s)	291, 410, 449, 591, 601, 702
SsiI	CCGC	2 cut(s)	92, 202
SspMI	CTAG	4 cut(s)	386, 584, 801, 942
TaaI	ACNGT	1 cut(s)	508
TaqI	TCGA	1 cut(s)	196
TasI	AATT	6 cut(s)	291, 410, 449, 591, 601, 702
TatI	WGTACW	1 cut(s)	932
TfiI	GAWTC	5 cut(s)	4, 145, 227, 562, 788
Tru1I	TTAA	3 cut(s)	378, 648, 735
Tru9I	TTAA	3 cut(s)	378, 648, 735
TscAI	CASTG	3 cut(s)	111, 467, 511
TseFI	GTSAC	1 cut(s)	823
Tsp45I	GTSAC	1 cut(s)	823
TspDTI	ATGAA	6 cut(s)	20, 303, 319, 450, 458, 824
TspRI	CASTG	3 cut(s)	111, 467, 511
Vha464I	CTTAAG	1 cut(s)	647
VpaK11BI	GGWCC	1 cut(s)	893
VspI	ATTAAT	1 cut(s)	378
XapI	RAATTY	3 cut(s)	291, 410, 702
XceI	RCATGY	2 cut(s)	92, 919
XspI	CTAG	4 cut(s)	386, 584, 801, 942
Zsp2I	ATGCAT	1 cut(s)	37

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