Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0017608

Physical Location & Seq

Genomic Coordinates Reverse (-)

71237443 .. 71238477

Gene Structure 1035 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG412300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 654 bp

ATGCTATTAAATAATGATGATGTAGGACCATCTATTAGGCGCGGGACTTGGAAGTGGGATTCTGGGTTGACTGTGGGGGACTTTGATGGGCATTCGAAACGGGTTTTGAGCTGTTGTTTTAAGCCAACAAGACCCTTTCGCATTGTCACATGCGGTGAGGATTTCCTGGTCAATTTCTATGAAGGGCCTCCTTTCAAATTCAAGCAGTCTCACAGGGATCACTCGAATTTTGTGAACTCTGTAAGGTACTCTCCAGATGGGAGTAAGTTTATCACTGTAAGCTCAGATAAGAAGGGTCTTATTTTTTATGGTAAGACTACGGAGAAGATCAAAGAGCTTTCATCGGAAGATGGCCACAAAGGCAGCATTTATGCTCTTAGCTGGAGTCCTGATGGCAAACAAATTTTGACTGTGTCCGCTGACAAGTCGGCGAAAGTATGGGATATATGTGAGGATGGTAATGGGAAGGTGAATAAAACATTGACATGTCCTAGATCAAGTGGAGTGGATGACATGCTTGTTGGTGGCCTATGGCAGAATGATCATATAGTTATTGTTTCACTTGGCGTTGATCAGGAAAGGGGTGAGGAAGAGCCTCCGCAGACGAGAGAGGAGAGTAGGGAACGATTGGCGGTGTGGTTGGGTTGGAGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0003674 GO:0003779 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005856 GO:0005884 GO:0005938 GO:0006996 GO:0007010 GO:0007015 GO:0008064 GO:0008092 GO:0008150 GO:0008154 GO:0009987 GO:0010638 GO:0015629 GO:0016043 GO:0022411 GO:0030029 GO:0030036 GO:0030042 GO:0030832 GO:0030834 GO:0030836 GO:0030863 GO:0030864 GO:0031461 GO:0032535 GO:0032956 GO:0032970 GO:0032984 GO:0032991 GO:0033043 GO:0042641 GO:0042643 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0043243 GO:0043244 GO:0043624 GO:0043933 GO:0044422 GO:0044424 GO:0044430 GO:0044444 GO:0044446 GO:0044448 GO:0044464 GO:0044877 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051015 GO:0051128 GO:0051130 GO:0051261 GO:0051493 GO:0051495 GO:0065007 GO:0065008 GO:0071840 GO:0071944 GO:0080008 GO:0090066 GO:0097435 GO:0099080 GO:0099081 GO:0099512 GO:0099513 GO:0099568 GO:0110053 GO:1901879 GO:1901881 GO:1902494 GO:1902903 GO:1902905 GO:1990234

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WD40

Protein Analysis

217

Amino Acids

24.35

Weight (kDa)

6.22

Isoelectric Point (pI)

42.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_EML	PF23409	16 - 170	5.1e-12	Echinoderm microtubule-associated protein first beta-propeller
Beta-prop_WDR5	PF25175	17 - 162	1.9e-16	WDR5 beta-propeller domain
Beta-prop_WDR3_2nd	PF25172	21 - 148	4.6e-08	WDR3 second beta-propeller domain
WD40_Prp19	PF24814	22 - 152	3e-14	Prp19 WD40 domain
WD40_WDHD1_1st	PF24817	27 - 149	8.2e-08	WDHD1 first WD40 domain
Beta-prop_WDR36-Utp21_2nd	PF25168	30 - 150	3.3e-07	WDR36/Utp21 second beta-propeller domain
Beta-prop_EML_2	PF23414	35 - 150	8.2e-09	Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_RIG_2nd	PF23775	67 - 168	8.4e-07	RIG second beta-propeller
Beta-prop_CAF1B_HIR1	PF24105	70 - 151	7.1e-08	CAF1B/HIR1 beta-propeller domain
WD40_CDC20-Fz	PF24807	71 - 150	3.5e-06	CDC20/Fizzy WD40 domain
Beta-prop_Aladin	PF25460	71 - 149	1.3e-06	Aladin seven-bladed propeller
Beta-prop_IFT122_1st	PF23381	73 - 153	8.4e-06	IFT122 first beta-propeller
Beta-prop_THOC3	PF25174	74 - 151	9.8e-14	THOC3 beta-propeller domain
EIF3I	PF24805	74 - 151	3.1e-10	EIF3I
WD40	PF00400	114 - 148	2.8e-09	WD domain, G-beta repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0017608)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g30420 FvH4_5g16561
malus_domestica	MD09G1280700.v1.1
rosa_chinensis	RchiOBHm_Chr3g0486521 RchiOBHm_Chr5g0062751 RchiOBHm_Chr6g0266701 RchiOBHm_Chr6g0295791
rosa_multiflora	Rmu_sc0014500.1_g000006 Rmu_ssc0000472.1_g000012
rosa_samantha	Rh5AG412300 Rh7DG018200
rosa_wichuraiana	Rw5G043730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	42
AciI	CCGC	5 cut(s)	42, 153, 417, 599, 632
AclWI	GGATC	1 cut(s)	225
AcoI	YGGCCR	1 cut(s)	352
AcsI	RAATTY	3 cut(s)	197, 226, 402
AfaI	GTAC	1 cut(s)	248
AflIII	ACRYGT	1 cut(s)	485
AgsI	TTSAA	2 cut(s)	196, 202
AjnI	CCWGG	1 cut(s)	165
AluBI	AGCT	5 cut(s)	111, 282, 337, 381, 651
AluI	AGCT	5 cut(s)	111, 282, 337, 381, 651
Alw26I	GTCTC	1 cut(s)	213
AlwI	GGATC	1 cut(s)	225
AoxI	GGCC	3 cut(s)	185, 352, 526
ApeKI	GCWGC	1 cut(s)	363
ApoI	RAATTY	3 cut(s)	197, 226, 402
AspLEI	GCGC	1 cut(s)	42
AspS9I	GGNCC	2 cut(s)	26, 185
AsuHPI	GGTGA	3 cut(s)	167, 481, 596
AsuII	TTCGAA	1 cut(s)	95
AvaII	GGWCC	1 cut(s)	26
BalI	TGGCCA	1 cut(s)	354
BbvI	GCAGC	1 cut(s)	375
BccI	CCATC	6 cut(s)	37, 80, 251, 344, 386, 449
BciT130I	CCWGG	1 cut(s)	167
BclI	TGATCA	2 cut(s)	541, 571
BcoDI	GTCTC	1 cut(s)	213
BfaI	CTAG	1 cut(s)	492
BglI	GCCNNNNNGGC	1 cut(s)	360
BisI	GCNGC	1 cut(s)	364
BlsI	GCNGC	1 cut(s)	365
Bme1390I	CCNGG	1 cut(s)	167
Bme18I	GGWCC	1 cut(s)	26
BmgT120I	GGNCC	2 cut(s)	26, 185
BmrFI	CCNGG	1 cut(s)	167
BpmI	CTGGAG	2 cut(s)	237, 403
Bpu14I	TTCGAA	1 cut(s)	95
BseBI	CCWGG	1 cut(s)	167
BseGI	GGATG	2 cut(s)	460, 514
BseMII	CTCAG	1 cut(s)	297
BseRI	GAGGAG	1 cut(s)	626
BseXI	GCAGC	1 cut(s)	375
Bsh1236I	CGCG	1 cut(s)	42
BshFI	GGCC	3 cut(s)	187, 354, 528
BslFI	GGGAC	2 cut(s)	58, 92
BsmAI	GTCTC	1 cut(s)	213
BsmFI	GGGAC	2 cut(s)	58, 92
BsmI	GAATGC	1 cut(s)	91
BsnI	GGCC	3 cut(s)	187, 354, 528
Bsp119I	TTCGAA	1 cut(s)	95
Bsp143I	GATC	5 cut(s)	217, 327, 494, 541, 571
BspACI	CCGC	5 cut(s)	42, 153, 417, 599, 632
BspANI	GGCC	3 cut(s)	187, 354, 528
BspCNI	CTCAG	1 cut(s)	296
BspFNI	CGCG	1 cut(s)	42
BspPI	GGATC	1 cut(s)	225
BspQI	GCTCTTC	1 cut(s)	585
BspT104I	TTCGAA	1 cut(s)	95
BssMI	GATC	5 cut(s)	217, 327, 494, 541, 571
Bst2UI	CCWGG	1 cut(s)	167
Bst4CI	ACNGT	3 cut(s)	73, 277, 412
Bst6I	CTCTTC	1 cut(s)	585
BstBI	TTCGAA	1 cut(s)	95
BstDEI	CTNAG	2 cut(s)	283, 377
BstF5I	GGATG	2 cut(s)	460, 514
BstFNI	CGCG	1 cut(s)	42
BstHHI	GCGC	1 cut(s)	42
BstKTI	GATC	5 cut(s)	220, 330, 497, 544, 574
BstMAI	GTCTC	1 cut(s)	213
BstMBI	GATC	5 cut(s)	217, 327, 494, 541, 571
BstMWI	GCNNNNNNNGC	1 cut(s)	360
BstNI	CCWGG	1 cut(s)	167
BstNSI	RCATGY	3 cut(s)	153, 489, 517
BstSCI	CCNGG	1 cut(s)	165
BstUI	CGCG	1 cut(s)	42
BstV1I	GCAGC	1 cut(s)	375
BsuRI	GGCC	3 cut(s)	187, 354, 528
BtsCI	GGATG	2 cut(s)	460, 514
BtsIMutI	CAGTG	1 cut(s)	273
CfoI	GCGC	1 cut(s)	42
Cfr13I	GGNCC	2 cut(s)	26, 185
Csp6I	GTAC	1 cut(s)	247
CspCI	CAANNNNNGTGG	2 cut(s)	486, 521
CviAII	CATG	3 cut(s)	150, 486, 514
CviQI	GTAC	1 cut(s)	247
DdeI	CTNAG	2 cut(s)	283, 377
DpnI	GATC	5 cut(s)	219, 329, 496, 543, 573
DpnII	GATC	5 cut(s)	217, 327, 494, 541, 571
EaeI	YGGCCR	1 cut(s)	352
Eam1104I	CTCTTC	1 cut(s)	585
EarI	CTCTTC	1 cut(s)	585
Eco47I	GGWCC	1 cut(s)	26
EcoO109I	RGGNCCY	1 cut(s)	185
EcoRII	CCWGG	1 cut(s)	165
FaeI	CATG	3 cut(s)	153, 489, 517
FaqI	GGGAC	2 cut(s)	58, 92
FatI	CATG	3 cut(s)	149, 485, 513
FauI	CCCGC	1 cut(s)	35
FbaI	TGATCA	2 cut(s)	541, 571
Fnu4HI	GCNGC	1 cut(s)	364
FokI	GGATG	2 cut(s)	467, 521
Fsp4HI	GCNGC	1 cut(s)	364
FspBI	CTAG	1 cut(s)	492
GlaI	GCGC	1 cut(s)	41
GluI	GCNGC	1 cut(s)	364
GsuI	CTGGAG	2 cut(s)	237, 403
HaeIII	GGCC	3 cut(s)	187, 354, 528
HhaI	GCGC	1 cut(s)	42
Hin1II	CATG	3 cut(s)	153, 489, 517
Hin6I	GCGC	1 cut(s)	40
HinP1I	GCGC	1 cut(s)	40
HincII	GTYRAC	1 cut(s)	69
HindII	GTYRAC	1 cut(s)	69
HinfI	GANTC	2 cut(s)	59, 385
HphI	GGTGA	3 cut(s)	167, 481, 596
Hpy166II	GTNNAC	2 cut(s)	69, 235
Hpy188I	TCNGA	2 cut(s)	286, 346
Hpy188III	TCNNGA	3 cut(s)	254, 389, 575
Hpy8I	GTNNAC	2 cut(s)	69, 235
HpyAV	CCTTC	3 cut(s)	176, 286, 460
HpyCH4III	ACNGT	3 cut(s)	73, 277, 412
HpyF10VI	GCNNNNNNNGC	1 cut(s)	360
HpyF3I	CTNAG	2 cut(s)	283, 377
Hsp92II	CATG	3 cut(s)	153, 489, 517
HspAI	GCGC	1 cut(s)	40
Ksp22I	TGATCA	2 cut(s)	541, 571
Kzo9I	GATC	5 cut(s)	217, 327, 494, 541, 571
LguI	GCTCTTC	1 cut(s)	585
LmnI	GCTCC	1 cut(s)	648
LpnPI	CCDG	8 cut(s)	48, 152, 179, 199, 267, 367, 402, 560
Lsp1109I	GCAGC	1 cut(s)	375
MaeI	CTAG	1 cut(s)	492
MaeIII	GTNAC	1 cut(s)	145
MalI	GATC	5 cut(s)	219, 329, 496, 543, 573
MboI	GATC	5 cut(s)	217, 327, 494, 541, 571
MboII	GAAGA	3 cut(s)	337, 359, 602
MlsI	TGGCCA	1 cut(s)	354
MluCI	AATT	4 cut(s)	172, 197, 226, 402
MluNI	TGGCCA	1 cut(s)	354
MlyI	GAGTC	1 cut(s)	394
MmeI	TCCRAC	1 cut(s)	626
MnlI	CCTC	6 cut(s)	151, 198, 445, 580, 604, 606
Mox20I	TGGCCA	1 cut(s)	354
MscI	TGGCCA	1 cut(s)	354
MseI	TTAA	2 cut(s)	8, 120
MslI	CAYNNNNRTG	1 cut(s)	484
Msp20I	TGGCCA	1 cut(s)	354
MspA1I	CMGCKG	1 cut(s)	419
MspR9I	CCNGG	1 cut(s)	167
Mva1269I	GAATGC	1 cut(s)	91
MvaI	CCWGG	1 cut(s)	167
MvnI	CGCG	1 cut(s)	42
MwoI	GCNNNNNNNGC	1 cut(s)	360
NdeII	GATC	5 cut(s)	217, 327, 494, 541, 571
NlaIII	CATG	3 cut(s)	153, 489, 517
NmuCI	GTSAC	1 cut(s)	145
NspI	RCATGY	3 cut(s)	153, 489, 517
NspV	TTCGAA	1 cut(s)	95
PciI	ACATGT	1 cut(s)	485
PciSI	GCTCTTC	1 cut(s)	585
PctI	GAATGC	1 cut(s)	91
PfeI	GAWTC	1 cut(s)	59
PflFI	GACNNNGTC	1 cut(s)	412
PkrI	GCNGC	1 cut(s)	365
PleI	GAGTC	1 cut(s)	393
PpsI	GAGTC	1 cut(s)	393
PscI	ACATGT	1 cut(s)	485
Psp6I	CCWGG	1 cut(s)	165
PspGI	CCWGG	1 cut(s)	165
PspPI	GGNCC	2 cut(s)	26, 185
PsyI	GACNNNGTC	1 cut(s)	412
RsaI	GTAC	1 cut(s)	248
RsaNI	GTAC	1 cut(s)	247
RseI	CAYNNNNRTG	1 cut(s)	484
SapI	GCTCTTC	1 cut(s)	585
SaqAI	TTAA	2 cut(s)	8, 120
SatI	GCNGC	1 cut(s)	364
Sau3AI	GATC	5 cut(s)	217, 327, 494, 541, 571
Sau96I	GGNCC	2 cut(s)	26, 185
SchI	GAGTC	1 cut(s)	394
ScrFI	CCNGG	1 cut(s)	167
SetI	ASST	7 cut(s)	113, 248, 284, 339, 383, 471, 653
SfuI	TTCGAA	1 cut(s)	95
SinI	GGWCC	1 cut(s)	26
SmiMI	CAYNNNNRTG	1 cut(s)	484
Sse9I	AATT	4 cut(s)	172, 197, 226, 402
SsiI	CCGC	5 cut(s)	42, 153, 417, 599, 632
SspMI	CTAG	1 cut(s)	492
StyD4I	CCNGG	1 cut(s)	165
TaaI	ACNGT	3 cut(s)	73, 277, 412
TaqI	TCGA	2 cut(s)	95, 224
TasI	AATT	4 cut(s)	172, 197, 226, 402
TfiI	GAWTC	1 cut(s)	59
Tru1I	TTAA	2 cut(s)	8, 120
Tru9I	TTAA	2 cut(s)	8, 120
TscAI	CASTG	1 cut(s)	280
TseFI	GTSAC	1 cut(s)	145
TseI	GCWGC	1 cut(s)	363
Tsp45I	GTSAC	1 cut(s)	145
TspDTI	ATGAA	2 cut(s)	195, 330
TspGWI	ACGGA	1 cut(s)	335
TspRI	CASTG	1 cut(s)	280
Tth111I	GACNNNGTC	1 cut(s)	412
VpaK11BI	GGWCC	1 cut(s)	26
XapI	RAATTY	3 cut(s)	197, 226, 402
XceI	RCATGY	3 cut(s)	153, 489, 517
XspI	CTAG	1 cut(s)	492

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