Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0002552

Physical Location & Seq

Genomic Coordinates Forward (+)

30000663 .. 30002672

Gene Structure 2010 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG298700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGGCGCCGAGGCTCGGCTCCGGCGACGCATCCGGCTTCAAGTTCCTTCTCTTTCTGGTCGAGATTTACGACCTCATCGCCGTGCTTGTCCACTTGTTCGCTAATCTTGCCATGAGATTCACTGGTGAGAGAAATGAACGGCGGTGGAGAAGGGCTCGCGGCTTCGACGACGTCTGGAGCGGCGATGGAGCCGCTCGACTGGATGTTTTCTCAAGTTTCTGGAGAATAGACCGCCGGCGAGGAAGTTCAGGAAGACTTTGTGGACGAGTTTTCTGTGCCAAGTGTACAGAAAACTCAATTCCTGCCCCCCCTGATGACTCAAGGATAGATCGGGAAGAGAGGGAAAGGATTCGTGTCTGCAATTTTTGTTACAAGCAACATCAGCAAGGCATAGCTGCTACTCCTGATAATGGAACACAGATTGCTATTCTAGATCAAGGATATATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000285 GO:0000322 GO:0000323 GO:0000324 GO:0000329 GO:0003674 GO:0003824 GO:0005488 GO:0005543 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005768 GO:0005773 GO:0005774 GO:0005942 GO:0006629 GO:0006644 GO:0006650 GO:0006793 GO:0006796 GO:0006810 GO:0006996 GO:0007033 GO:0007275 GO:0008150 GO:0008152 GO:0008289 GO:0009555 GO:0009987 GO:0010008 GO:0010118 GO:0010256 GO:0012505 GO:0016020 GO:0016043 GO:0016192 GO:0016197 GO:0016301 GO:0016307 GO:0016310 GO:0016482 GO:0016740 GO:0016772 GO:0016773 GO:0019637 GO:0019898 GO:0030258 GO:0031090 GO:0031410 GO:0031982 GO:0032266 GO:0032501 GO:0032502 GO:0032991 GO:0035032 GO:0035091 GO:0042147 GO:0043167 GO:0043168 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044255 GO:0044422 GO:0044424 GO:0044425 GO:0044433 GO:0044437 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0046486 GO:0046488 GO:0046834 GO:0046854 GO:0046907 GO:0048229 GO:0048856 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0061695 GO:0070772 GO:0071704 GO:0071840 GO:0090332 GO:0097708 GO:0098588 GO:0098796 GO:0098805 GO:0098852 GO:1901981 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00562 ko04070 ko04145 ko04810 map00562 map04070 map04145 map04810

Pfam Domains

Protein Families

Cpn60_TCP1 FYVE PIP5K

Protein Analysis

149

Amino Acids

17.02

Weight (kDa)

8.99

Isoelectric Point (pI)

46.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
FYVE	PF01363	83 - 128	1.1e-07	FYVE zinc finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0002552)

Species	Orthologous Gene IDs
malus_domestica	MD14G1115000.v1.1
rosa_chinensis	RchiOBHm_Chr1g0330401 RchiOBHm_Chr2g0102551 RchiOBHm_Chr2g0117801 RchiOBHm_Chr4g0389801 RchiOBHm_Chr5g0034931 RchiOBHm_Chr7g0225541
rosa_laevigata	RLG00000010557 RLG00000010558 RLG00000014391
rosa_multiflora	Rmu_co8427689.1_g000001 Rmu_sc0000039.1_g000004 Rmu_sc0000258.1_g000038 Rmu_sc0000706.1_g000005 Rmu_sc0009984.1_g000006 Rmu_sc0017370.1_g000001
rosa_roxburghii	Rroxscaffold_1G00028750 Rroxscaffold_1G00028760 Rroxscaffold_6G00396980 Rroxscaffold_7G00210170
rosa_rugosa	Rorug02G0238300 Rorug02G0347500 Rorug05G0221100 Rorug07G0270200
rosa_samantha	Rh1DG111200 Rh3BG298700 Rh3CG233300 Rh4AG022100 Rh4AG059200 Rh4AG116300 Rh4CG252100 Rh4CG252200 Rh4DG118500 Rh5DG477900 Rh6AG019300 Rh6BG057600 Rh6BG074100 Rh6BG215700 Rh6BG237700 Rh6CG386400
rosa_wichuraiana	Rw1G015170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	174
AccB1I	GGYRCC	1 cut(s)	4
AccBSI	CCGCTC	2 cut(s)	180, 194
AccII	CGCG	1 cut(s)	159
AciI	CCGC	5 cut(s)	142, 159, 180, 192, 232
AcyI	GRCGYC	2 cut(s)	5, 171
AfaI	GTAC	1 cut(s)	286
AfiI	CCNNNNNNNGG	2 cut(s)	14, 410
AgsI	TTSAA	1 cut(s)	40
AluBI	AGCT	1 cut(s)	395
AluI	AGCT	1 cut(s)	395
ApeKI	GCWGC	1 cut(s)	395
Asp700I	GAANNNNTTC	1 cut(s)	348
AspLEI	GCGC	1 cut(s)	7
AsuHPI	GGTGA	1 cut(s)	137
BanI	GGYRCC	1 cut(s)	4
BanII	GRGCYC	1 cut(s)	157
BbsI	GAAGAC	1 cut(s)	259
BbvI	GCAGC	1 cut(s)	382
BccI	CCATC	1 cut(s)	179
BceAI	ACGGC	2 cut(s)	65, 155
BfaI	CTAG	1 cut(s)	431
BfoI	RGCGCY	1 cut(s)	8
BisI	GCNGC	4 cut(s)	160, 181, 192, 396
BlsI	GCNGC	4 cut(s)	161, 182, 193, 397
BmiI	GGNNCC	3 cut(s)	6, 19, 190
BmsI	GCATC	1 cut(s)	38
BpiI	GAAGAC	1 cut(s)	259
BplI	GAGNNNNNCTC	2 cut(s)	139, 171
BpmI	CTGGAG	2 cut(s)	196, 241
BpuEI	CTTGAG	2 cut(s)	196, 304
BsaHI	GRCGYC	2 cut(s)	5, 171
BsaJI	CCNNGG	1 cut(s)	8
Bsc4I	CCNNNNNNNGG	2 cut(s)	14, 410
Bse118I	RCCGGY	1 cut(s)	234
Bse1I	ACTGG	2 cut(s)	127, 204
BseDI	CCNNGG	1 cut(s)	8
BseGI	GGATG	2 cut(s)	29, 208
BseLI	CCNNNNNNNGG	2 cut(s)	14, 410
BseNI	ACTGG	2 cut(s)	127, 204
BseXI	GCAGC	1 cut(s)	382
Bsh1236I	CGCG	1 cut(s)	159
BshNI	GGYRCC	1 cut(s)	4
BsiSI	CCGG	3 cut(s)	21, 33, 235
BslI	CCNNNNNNNGG	2 cut(s)	14, 410
Bsp1286I	GDGCHC	1 cut(s)	157
Bsp1407I	TGTACA	1 cut(s)	284
Bsp143I	GATC	2 cut(s)	328, 433
BspACI	CCGC	5 cut(s)	142, 159, 180, 192, 232
BspFNI	CGCG	1 cut(s)	159
BspLI	GGNNCC	3 cut(s)	6, 19, 190
BspT107I	GGYRCC	1 cut(s)	4
BsrBI	CCGCTC	2 cut(s)	180, 194
BsrFI	RCCGGY	1 cut(s)	234
BsrGI	TGTACA	1 cut(s)	284
BsrI	ACTGG	2 cut(s)	127, 204
BssAI	RCCGGY	1 cut(s)	234
BssECI	CCNNGG	1 cut(s)	8
BssMI	GATC	2 cut(s)	328, 433
BssNI	GRCGYC	2 cut(s)	5, 171
Bst6I	CTCTTC	1 cut(s)	330
BstACI	GRCGYC	2 cut(s)	5, 171
BstAUI	TGTACA	1 cut(s)	284
BstC8I	GCNNGC	2 cut(s)	157, 236
BstF5I	GGATG	2 cut(s)	29, 208
BstFNI	CGCG	1 cut(s)	159
BstH2I	RGCGCY	1 cut(s)	8
BstHHI	GCGC	1 cut(s)	7
BstKTI	GATC	2 cut(s)	331, 436
BstMBI	GATC	2 cut(s)	328, 433
BstMWI	GCNNNNNNNGC	2 cut(s)	107, 382
BstUI	CGCG	1 cut(s)	159
BstV1I	GCAGC	1 cut(s)	382
BstV2I	GAAGAC	1 cut(s)	259
BtgZI	GCGATG	2 cut(s)	61, 198
BtsCI	GGATG	2 cut(s)	29, 208
BtsIMutI	CAGTG	1 cut(s)	120
Cac8I	GCNNGC	2 cut(s)	157, 236
CfoI	GCGC	1 cut(s)	7
Cfr10I	RCCGGY	1 cut(s)	234
CseI	GACGC	1 cut(s)	35
Csp6I	GTAC	1 cut(s)	285
CviAII	CATG	1 cut(s)	112
CviJI	RGCY	7 cut(s)	13, 18, 36, 155, 162, 191, 395
CviKI_1	RGCY	7 cut(s)	13, 18, 36, 155, 162, 191, 395
CviQI	GTAC	1 cut(s)	285
DinI	GGCGCC	1 cut(s)	6
DpnI	GATC	2 cut(s)	330, 435
DpnII	GATC	2 cut(s)	328, 433
Eam1104I	CTCTTC	1 cut(s)	330
EarI	CTCTTC	1 cut(s)	330
Eco24I	GRGCYC	1 cut(s)	157
EcoT38I	GRGCYC	1 cut(s)	157
EgeI	GGCGCC	1 cut(s)	6
EheI	GGCGCC	1 cut(s)	6
FaeI	CATG	1 cut(s)	115
FaiI	YATR	4 cut(s)	113, 392, 444, 446
FatI	CATG	1 cut(s)	111
Fnu4HI	GCNGC	4 cut(s)	160, 181, 192, 396
FokI	GGATG	2 cut(s)	16, 215
FriOI	GRGCYC	1 cut(s)	157
Fsp4HI	GCNGC	4 cut(s)	160, 181, 192, 396
FspBI	CTAG	1 cut(s)	431
GlaI	GCGC	1 cut(s)	6
GluI	GCNGC	4 cut(s)	160, 181, 192, 396
GsuI	CTGGAG	2 cut(s)	196, 241
HaeII	RGCGCY	1 cut(s)	8
HapII	CCGG	3 cut(s)	21, 33, 235
HgaI	GACGC	1 cut(s)	35
HhaI	GCGC	1 cut(s)	7
Hin1I	GRCGYC	2 cut(s)	5, 171
Hin1II	CATG	1 cut(s)	115
Hin6I	GCGC	1 cut(s)	5
HinP1I	GCGC	1 cut(s)	5
HinfI	GANTC	3 cut(s)	117, 317, 349
HpaII	CCGG	3 cut(s)	21, 33, 235
HphI	GGTGA	1 cut(s)	137
Hpy166II	GTNNAC	3 cut(s)	91, 263, 285
Hpy188III	TCNNGA	7 cut(s)	61, 175, 220, 249, 332, 404, 431
Hpy8I	GTNNAC	3 cut(s)	91, 263, 285
Hpy99I	CGWCG	3 cut(s)	29, 170, 173
HpyAV	CCTTC	2 cut(s)	56, 144
HpyCH4IV	ACGT	1 cut(s)	171
HpyCH4V	TGCA	1 cut(s)	360
HpyF10VI	GCNNNNNNNGC	2 cut(s)	107, 382
HpySE526I	ACGT	1 cut(s)	171
Hsp92I	GRCGYC	2 cut(s)	5, 171
Hsp92II	CATG	1 cut(s)	115
HspAI	GCGC	1 cut(s)	5
KasI	GGCGCC	1 cut(s)	4
KroI	GCCGGC	1 cut(s)	234
KroNI	GCCGGC	1 cut(s)	236
Kzo9I	GATC	2 cut(s)	328, 433
LmnI	GCTCC	3 cut(s)	23, 177, 188
Lsp1109I	GCAGC	1 cut(s)	382
LweI	GCATC	1 cut(s)	38
MaeI	CTAG	1 cut(s)	431
MaeII	ACGT	1 cut(s)	171
MaeIII	GTNAC	1 cut(s)	368
MalI	GATC	2 cut(s)	330, 435
MbiI	CCGCTC	2 cut(s)	180, 194
MboI	GATC	2 cut(s)	328, 433
MboII	GAAGA	2 cut(s)	264, 347
MhlI	GDGCHC	1 cut(s)	157
MluCI	AATT	2 cut(s)	297, 361
Mly113I	GGCGCC	1 cut(s)	5
MlyI	GAGTC	1 cut(s)	311
MnlI	CCTC	4 cut(s)	3, 83, 233, 333
MreI	CGCCGGCG	1 cut(s)	234
MroNI	GCCGGC	1 cut(s)	234
MroXI	GAANNNNTTC	1 cut(s)	348
MslI	CAYNNNNRTG	1 cut(s)	80
MspI	CCGG	3 cut(s)	21, 33, 235
MvnI	CGCG	1 cut(s)	159
MwoI	GCNNNNNNNGC	2 cut(s)	107, 382
NaeI	GCCGGC	1 cut(s)	236
NarI	GGCGCC	1 cut(s)	5
NdeII	GATC	2 cut(s)	328, 433
NgoMIV	GCCGGC	1 cut(s)	234
NlaIII	CATG	1 cut(s)	115
NlaIV	GGNNCC	3 cut(s)	6, 19, 190
NmeAIII	GCCGAG	1 cut(s)	33
PcsI	WCGNNNNNNNCGW	2 cut(s)	21, 66
PdiI	GCCGGC	1 cut(s)	236
PdmI	GAANNNNTTC	1 cut(s)	348
PfeI	GAWTC	2 cut(s)	117, 349
PflFI	GACNNNGTC	1 cut(s)	170
PkrI	GCNGC	4 cut(s)	161, 182, 193, 397
PleI	GAGTC	1 cut(s)	311
PluTI	GGCGCC	1 cut(s)	8
PpsI	GAGTC	1 cut(s)	311
PspN4I	GGNNCC	3 cut(s)	6, 19, 190
PsyI	GACNNNGTC	1 cut(s)	170
RsaI	GTAC	1 cut(s)	286
RsaNI	GTAC	1 cut(s)	285
RseI	CAYNNNNRTG	1 cut(s)	80
SatI	GCNGC	4 cut(s)	160, 181, 192, 396
Sau3AI	GATC	2 cut(s)	328, 433
SchI	GAGTC	1 cut(s)	311
SduI	GDGCHC	1 cut(s)	157
SetI	ASST	3 cut(s)	75, 174, 397
SfaNI	GCATC	1 cut(s)	38
SfoI	GGCGCC	1 cut(s)	6
SgrAI	CRCCGGYG	1 cut(s)	234
SmiMI	CAYNNNNRTG	1 cut(s)	80
SmlI	CTYRAG	2 cut(s)	211, 319
SmoI	CTYRAG	2 cut(s)	211, 319
Sse9I	AATT	2 cut(s)	297, 361
SsiI	CCGC	5 cut(s)	142, 159, 180, 192, 232
SspDI	GGCGCC	1 cut(s)	4
SspMI	CTAG	1 cut(s)	431
TaiI	ACGT	1 cut(s)	174
TaqI	TCGA	3 cut(s)	60, 165, 196
TasI	AATT	2 cut(s)	297, 361
TatI	WGTACW	1 cut(s)	284
TauI	GCSGC	3 cut(s)	162, 183, 194
TfiI	GAWTC	2 cut(s)	117, 349
TscAI	CASTG	1 cut(s)	127
TseI	GCWGC	1 cut(s)	395
TspDTI	ATGAA	1 cut(s)	150
TspRI	CASTG	1 cut(s)	127
Tth111I	GACNNNGTC	1 cut(s)	170
XbaI	TCTAGA	1 cut(s)	430
XmnI	GAANNNNTTC	1 cut(s)	348
XspI	CTAG	1 cut(s)	431
ZraI	GACGTC	1 cut(s)	172

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