Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0005026

Physical Location & Seq

Genomic Coordinates Reverse (-)

53281744 .. 53286016

Gene Structure 4273 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG267800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1113 bp

ATGCAGGGCTCTTCGATGCATGGGGCGAGCAGTGTGCTGGCATCGAAGATGGACAATTCGTTTGTTTTGTTACCGCAAAGACCTCAGGCGCAGGGAGTCCCTCCTCGTCCTCGTGCTGGAGCAGGCAATGCAAGCCAGGCTGGGAAGGCAATGGATGAGTCCTTTGTGGTTGTTTATAAGTCTGAGTCCTCGGTGGATGGCGGTGGGGTCCAATTGCCGTCACCAGATGGAGGTCCTAATGGTCCTTTACAACCTAACAATTCTGGGTTTCACTCAACTATAACTCTCCTGAAACGGGCATTTGAAATTGCCACCACGCAAACACAAGTTGAGCAACCTTTATGCCTTGAATGCATGAAGGTATTGTCTGATAAACTTGACAAGGAGGTGGAAGATGTGAATAGAGACATTACGGCATACGAGTCATGTCTTAAACGGTTGGAGGGTGAAACAAGGGAAGTTCTTAGTGAGGCTGATTTTCTCAAGGAAAAGCTAAAGATTGAGGAAGAAGAGAGAAAACTAGAAGCAGCAATTGCAGAAATGGAGAAACAGAATGCAGAAGTTAATGCTGAACTGAAGGAACTTGACTTAAAATCTGGGCGATTTAAGGAATTAGAGGAGCGGTACTGGCACGAGTTCAACACTTTCCAGTTTCAATTGATTTCAAATCAGGAAGAGAGAGATGCAATTTTAGCCAAGATTGAAGTTTCGCAGGCACATTTAGAGTTGTTGAAACGAACTAATGTGCTCAATGATGCCTTTCCTATCTGGCATGATGGAGAATTTGGAACCATTAACAATTTTCGGCTTGGACGACTTCCTAAAATTCCGGTCGAATGGGATGAGATAAATGCTGCCTGGGGTCAAGCCTGCCTTCTCCTCCATACAATGTGTCAATACTTCCGGCCAAAATTTCAGTATCCTTTTCATGAGACACATCAAATTTGTTTATTAAGCTCTTGTGAAATTGACTTCTTGGTGATTTTTATTGAATTGACCTTAATTCATTACCTTCTAGATATCGAATTAAAATACTTCCTATGGGTAGCTACCCTCGGATTATGGACAGCAACAACAATACTTATGAATTGTAAGTGTAGTCTATTCCCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000045 GO:0000407 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005942 GO:0006605 GO:0006623 GO:0006810 GO:0006886 GO:0006914 GO:0006950 GO:0006952 GO:0006995 GO:0006996 GO:0007033 GO:0007034 GO:0007154 GO:0008104 GO:0008150 GO:0008152 GO:0009056 GO:0009267 GO:0009605 GO:0009607 GO:0009620 GO:0009846 GO:0009856 GO:0009987 GO:0009991 GO:0015031 GO:0015833 GO:0016020 GO:0016043 GO:0016192 GO:0016236 GO:0019898 GO:0022414 GO:0022607 GO:0031410 GO:0031667 GO:0031668 GO:0031669 GO:0031982 GO:0032501 GO:0032991 GO:0033036 GO:0033365 GO:0033554 GO:0034271 GO:0034272 GO:0034613 GO:0035032 GO:0042594 GO:0042886 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043562 GO:0044085 GO:0044237 GO:0044248 GO:0044424 GO:0044425 GO:0044444 GO:0044464 GO:0044706 GO:0044804 GO:0045184 GO:0045324 GO:0046907 GO:0050832 GO:0050896 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0051704 GO:0051707 GO:0051716 GO:0061695 GO:0061919 GO:0070727 GO:0070925 GO:0071496 GO:0071702 GO:0071705 GO:0071840 GO:0072594 GO:0072665 GO:0072666 GO:0097708 GO:0098542 GO:0098796 GO:1902494 GO:1905037 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko04136 ko04137 ko04138 ko04140 ko04215 ko04371 ko05167 map04136 map04137 map04138 map04140 map04215 map04371 map05167

Pfam Domains

Protein Families

APG6

Protein Analysis

370

Amino Acids

41.94

Weight (kDa)

5.06

Isoelectric Point (pI)

44.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
APG6_N	PF17675	113 - 241	6.6e-28	Apg6 coiled-coil region
APG6	PF04111	244 - 306	2.3e-27	Apg6 BARA 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: OG0005026)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G61710 AT3G61710 AT3G61710 AT3G61710
fragaria_vesca	FvH4_7g16330 FvH4_7g16330 FvH4_7g16330 FvH4_7g16330 FvH4_7g16330 FvH4_7g16330 FvH4_7g16330 FvH4_7g16330 FvH4_7g16330
malus_domestica	MD01G1079900.v1.1 MD07G1148700.v1.1
prunus_persica	Prupe.2G187200_v2.0.a1
pyrus_communis	pycom01g10810 pycom07g14770
rosa_chinensis	RchiOBHm_Chr1g0359341
rosa_laevigata	RLG00000027878
rosa_multiflora	Rmu_sc0013596.1_g000001 Rmu_sc0017222.1_g000001 Rmu_ssc0000332.1_g000001
rosa_roxburghii	Rroxscaffold_4G00297080
rosa_rugosa	Rorug01G0270200
rosa_samantha	Rh1AG283700 Rh1BG249900 Rh1CG267800 Rh1DG278800
rosa_wichuraiana	Rw1G025190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	177
AccBSI	CCGCTC	1 cut(s)	622
AciI	CCGC	3 cut(s)	74, 201, 622
AcoI	YGGCCR	1 cut(s)	905
AcsI	RAATTY	4 cut(s)	782, 825, 911, 942
AcuI	CTGAAG	1 cut(s)	596
AfaI	GTAC	1 cut(s)	626
AfiI	CCNNNNNNNGG	3 cut(s)	116, 230, 295
AgsI	TTSAA	8 cut(s)	305, 350, 640, 656, 666, 704, 733, 992
AjnI	CCWGG	2 cut(s)	135, 857
AluBI	AGCT	3 cut(s)	493, 957, 1049
AluI	AGCT	3 cut(s)	493, 957, 1049
Alw21I	GWGCWC	1 cut(s)	750
Alw26I	GTCTC	2 cut(s)	399, 926
AoxI	GGCC	1 cut(s)	905
ApeKI	GCWGC	2 cut(s)	527, 854
ApoI	RAATTY	4 cut(s)	782, 825, 911, 942
ArsI	GACNNNNNNTTYG	2 cut(s)	44, 76
AspLEI	GCGC	1 cut(s)	91
AspS9I	GGNCC	3 cut(s)	208, 233, 242
AsuHPI	GGTGA	3 cut(s)	213, 458, 991
AvaII	GGWCC	3 cut(s)	208, 233, 242
AxyI	CCTNAGG	1 cut(s)	84
BanII	GRGCYC	1 cut(s)	11
BauI	CACGAG	2 cut(s)	111, 632
Bbv12I	GWGCWC	1 cut(s)	750
BbvI	GCAGC	2 cut(s)	539, 841
BccI	CCATC	4 cut(s)	43, 191, 221, 770
BceAI	ACGGC	2 cut(s)	202, 429
BcgI	CGANNNNNNTGC	2 cut(s)	16, 50
BciT130I	CCWGG	2 cut(s)	137, 859
BciVI	GTATCC	1 cut(s)	930
BcoDI	GTCTC	2 cut(s)	399, 926
BfaI	CTAG	2 cut(s)	521, 1016
BfuI	GTATCC	1 cut(s)	930
BisI	GCNGC	2 cut(s)	528, 855
BlsI	GCNGC	2 cut(s)	529, 856
Bme1390I	CCNGG	2 cut(s)	137, 859
Bme18I	GGWCC	3 cut(s)	208, 233, 242
BmgT120I	GGNCC	3 cut(s)	208, 233, 242
BmiI	GGNNCC	2 cut(s)	209, 790
BmrFI	CCNGG	2 cut(s)	137, 859
BmsI	GCATC	4 cut(s)	6, 50, 673, 745
BpmI	CTGGAG	1 cut(s)	138
BpuEI	CTTGAG	1 cut(s)	467
BsaJI	CCNNGG	3 cut(s)	189, 858, 1054
BsaWI	WCCGGW	1 cut(s)	829
Bsc4I	CCNNNNNNNGG	3 cut(s)	116, 230, 295
Bse1I	ACTGG	2 cut(s)	632, 649
Bse21I	CCTNAGG	1 cut(s)	84
Bse3DI	GCAATG	2 cut(s)	133, 156
BseBI	CCWGG	2 cut(s)	137, 859
BseDI	CCNNGG	3 cut(s)	189, 858, 1054
BseGI	GGATG	3 cut(s)	160, 202, 847
BseLI	CCNNNNNNNGG	3 cut(s)	116, 230, 295
BseMI	GCAATG	2 cut(s)	133, 156
BseMII	CTCAG	2 cut(s)	98, 174
BseNI	ACTGG	2 cut(s)	632, 649
BseRI	GAGGAG	3 cut(s)	93, 632, 869
BseXI	GCAGC	2 cut(s)	539, 841
BseYI	CCCAGC	1 cut(s)	140
Bsh1285I	CGRYCG	1 cut(s)	834
BshFI	GGCC	1 cut(s)	907
BsiEI	CGRYCG	1 cut(s)	834
BsiHKAI	GWGCWC	1 cut(s)	750
BsiSI	CCGG	2 cut(s)	830, 904
BslFI	GGGAC	1 cut(s)	83
BslI	CCNNNNNNNGG	3 cut(s)	116, 230, 295
BsmAI	GTCTC	2 cut(s)	399, 926
BsmFI	GGGAC	1 cut(s)	83
BsmI	GAATGC	2 cut(s)	356, 559
BsnI	GGCC	1 cut(s)	907
Bsp1286I	GDGCHC	2 cut(s)	11, 750
BspACI	CCGC	3 cut(s)	74, 201, 622
BspANI	GGCC	1 cut(s)	907
BspCNI	CTCAG	2 cut(s)	97, 175
BspHI	TCATGA	1 cut(s)	928
BspLI	GGNNCC	2 cut(s)	209, 790
BspQI	GCTCTTC	1 cut(s)	16
BsrBI	CCGCTC	1 cut(s)	622
BsrDI	GCAATG	2 cut(s)	133, 156
BsrI	ACTGG	2 cut(s)	632, 649
BssECI	CCNNGG	3 cut(s)	189, 858, 1054
BssSI	CACGAG	2 cut(s)	111, 632
Bst2BI	CACGAG	2 cut(s)	111, 632
Bst2UI	CCWGG	2 cut(s)	137, 859
Bst4CI	ACNGT	1 cut(s)	438
Bst6I	CTCTTC	3 cut(s)	16, 504, 669
BstAPI	GCANNNNNTGC	2 cut(s)	128, 533
BstC8I	GCNNGC	6 cut(s)	28, 39, 124, 133, 714, 871
BstDEI	CTNAG	3 cut(s)	84, 183, 464
BstF5I	GGATG	3 cut(s)	160, 202, 847
BstHHI	GCGC	1 cut(s)	91
BstMAI	GTCTC	2 cut(s)	399, 926
BstMCI	CGRYCG	1 cut(s)	834
BstMWI	GCNNNNNNNGC	8 cut(s)	128, 132, 137, 146, 351, 533, 628, 692
BstNI	CCWGG	2 cut(s)	137, 859
BstSCI	CCNGG	2 cut(s)	135, 857
BstV1I	GCAGC	2 cut(s)	539, 841
Bsu36I	CCTNAGG	1 cut(s)	84
BsuI	GTATCC	1 cut(s)	930
BsuRI	GGCC	1 cut(s)	907
BtsCI	GGATG	3 cut(s)	160, 202, 847
BtsI	GCAGTG	1 cut(s)	37
BtsIMutI	CAGTG	1 cut(s)	37
Cac8I	GCNNGC	6 cut(s)	28, 39, 124, 133, 714, 871
CciI	TCATGA	1 cut(s)	928
CfoI	GCGC	1 cut(s)	91
Cfr13I	GGNCC	3 cut(s)	208, 233, 242
Csp6I	GTAC	1 cut(s)	625
CviAII	CATG	6 cut(s)	20, 355, 426, 773, 929, 1110
CviQI	GTAC	1 cut(s)	625
DdeI	CTNAG	3 cut(s)	84, 183, 464
EaeI	YGGCCR	1 cut(s)	905
Eam1104I	CTCTTC	3 cut(s)	16, 504, 669
EarI	CTCTTC	3 cut(s)	16, 504, 669
Eco24I	GRGCYC	1 cut(s)	11
Eco32I	GATATC	1 cut(s)	1021
Eco47I	GGWCC	3 cut(s)	208, 233, 242
Eco57I	CTGAAG	1 cut(s)	596
Eco81I	CCTNAGG	1 cut(s)	84
EcoO109I	RGGNCCY	1 cut(s)	233
EcoRII	CCWGG	2 cut(s)	135, 857
EcoRV	GATATC	1 cut(s)	1021
EcoT22I	ATGCAT	2 cut(s)	21, 356
EcoT38I	GRGCYC	1 cut(s)	11
FaeI	CATG	6 cut(s)	23, 358, 429, 776, 932, 1113
FalI	AAGNNNNNCTT	2 cut(s)	858, 890
FaqI	GGGAC	1 cut(s)	83
FatI	CATG	6 cut(s)	19, 354, 425, 772, 928, 1109
Fnu4HI	GCNGC	2 cut(s)	528, 855
FokI	GGATG	3 cut(s)	167, 209, 854
FriOI	GRGCYC	1 cut(s)	11
Fsp4HI	GCNGC	2 cut(s)	528, 855
FspBI	CTAG	2 cut(s)	521, 1016
GlaI	GCGC	1 cut(s)	90
GluI	GCNGC	2 cut(s)	528, 855
GsaI	CCCAGC	1 cut(s)	144
GsuI	CTGGAG	1 cut(s)	138
HaeIII	GGCC	1 cut(s)	907
HapII	CCGG	2 cut(s)	830, 904
HhaI	GCGC	1 cut(s)	91
Hin1II	CATG	6 cut(s)	23, 358, 429, 776, 932, 1113
Hin6I	GCGC	1 cut(s)	89
HinP1I	GCGC	1 cut(s)	89
HinfI	GANTC	4 cut(s)	96, 158, 185, 422
HpaII	CCGG	2 cut(s)	830, 904
HphI	GGTGA	3 cut(s)	213, 458, 991
Hpy188I	TCNGA	3 cut(s)	184, 370, 1058
Hpy188III	TCNNGA	4 cut(s)	289, 671, 929, 1016
HpyAV	CCTTC	5 cut(s)	139, 352, 571, 884, 1022
HpyCH4III	ACNGT	1 cut(s)	438
HpyCH4V	TGCA	7 cut(s)	4, 19, 131, 354, 536, 557, 686
HpyF10VI	GCNNNNNNNGC	8 cut(s)	128, 132, 137, 146, 351, 533, 628, 692
HpyF3I	CTNAG	3 cut(s)	84, 183, 464
Hsp92II	CATG	6 cut(s)	23, 358, 429, 776, 932, 1113
HspAI	GCGC	1 cut(s)	89
LguI	GCTCTTC	1 cut(s)	16
LmnI	GCTCC	2 cut(s)	119, 619
Lsp1109I	GCAGC	2 cut(s)	539, 841
LweI	GCATC	4 cut(s)	6, 50, 673, 745
MaeI	CTAG	2 cut(s)	521, 1016
MaeIII	GTNAC	2 cut(s)	69, 219
MbiI	CCGCTC	1 cut(s)	622
MboII	GAAGA	6 cut(s)	3, 58, 404, 518, 521, 686
MfeI	CAATTG	3 cut(s)	212, 531, 656
MhlI	GDGCHC	2 cut(s)	11, 750
MlyI	GAGTC	4 cut(s)	105, 167, 194, 431
MmeI	TCCRAC	1 cut(s)	420
Mph1103I	ATGCAT	2 cut(s)	21, 356
MseI	TTAA	8 cut(s)	432, 564, 590, 606, 795, 953, 1001, 1028
MspI	CCGG	2 cut(s)	830, 904
MspR9I	CCNGG	2 cut(s)	137, 859
MunI	CAATTG	3 cut(s)	212, 531, 656
Mva1269I	GAATGC	2 cut(s)	356, 559
MvaI	CCWGG	2 cut(s)	137, 859
MwoI	GCNNNNNNNGC	8 cut(s)	128, 132, 137, 146, 351, 533, 628, 692
NlaIII	CATG	6 cut(s)	23, 358, 429, 776, 932, 1113
NlaIV	GGNNCC	2 cut(s)	209, 790
NmuCI	GTSAC	1 cut(s)	219
NsiI	ATGCAT	2 cut(s)	21, 356
PagI	TCATGA	1 cut(s)	928
PciSI	GCTCTTC	1 cut(s)	16
PcsI	WCGNNNNNNNCGW	1 cut(s)	811
PctI	GAATGC	2 cut(s)	356, 559
PkrI	GCNGC	2 cut(s)	529, 856
PleI	GAGTC	4 cut(s)	104, 166, 193, 430
PpsI	GAGTC	4 cut(s)	104, 166, 193, 430
PpuMI	RGGWCCY	1 cut(s)	233
PsiI	TTATAA	1 cut(s)	177
Psp5II	RGGWCCY	1 cut(s)	233
Psp6I	CCWGG	2 cut(s)	135, 857
PspFI	CCCAGC	1 cut(s)	140
PspGI	CCWGG	2 cut(s)	135, 857
PspN4I	GGNNCC	2 cut(s)	209, 790
PspPI	GGNCC	3 cut(s)	208, 233, 242
PspPPI	RGGWCCY	1 cut(s)	233
RsaI	GTAC	1 cut(s)	626
RsaNI	GTAC	1 cut(s)	625
SapI	GCTCTTC	1 cut(s)	16
SaqAI	TTAA	8 cut(s)	432, 564, 590, 606, 795, 953, 1001, 1028
SatI	GCNGC	2 cut(s)	528, 855
Sau96I	GGNCC	3 cut(s)	208, 233, 242
SchI	GAGTC	4 cut(s)	105, 167, 194, 431
ScrFI	CCNGG	2 cut(s)	137, 859
SduI	GDGCHC	2 cut(s)	11, 750
SfaNI	GCATC	4 cut(s)	6, 50, 673, 745
SinI	GGWCC	3 cut(s)	208, 233, 242
SmlI	CTYRAG	1 cut(s)	482
SmoI	CTYRAG	1 cut(s)	482
SsiI	CCGC	3 cut(s)	74, 201, 622
SspMI	CTAG	2 cut(s)	521, 1016
StyD4I	CCNGG	2 cut(s)	135, 857
TaaI	ACNGT	1 cut(s)	438
TaqI	TCGA	4 cut(s)	14, 44, 834, 1023
Tru1I	TTAA	8 cut(s)	432, 564, 590, 606, 795, 953, 1001, 1028
Tru9I	TTAA	8 cut(s)	432, 564, 590, 606, 795, 953, 1001, 1028
TscAI	CASTG	1 cut(s)	37
TseFI	GTSAC	1 cut(s)	219
TseI	GCWGC	2 cut(s)	527, 854
Tsp45I	GTSAC	1 cut(s)	219
TspDTI	ATGAA	4 cut(s)	371, 917, 995, 1100
TspRI	CASTG	1 cut(s)	37
VpaK11BI	GGWCC	3 cut(s)	208, 233, 242
XapI	RAATTY	4 cut(s)	782, 825, 911, 942
XbaI	TCTAGA	1 cut(s)	1015
XspI	CTAG	2 cut(s)	521, 1016
Zsp2I	ATGCAT	2 cut(s)	21, 356

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