Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0017268

Physical Location & Seq

Genomic Coordinates Reverse (-)

5287246 .. 5289132

Gene Structure 1887 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG026700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 684 bp

ATGATTGCAGAGAAGCCCAGTTGGATTAGGCATGAGGCTTTGCAAATTTTCTCCATTGATGTTCAGCCTGGTGGGCTTAGGGTTGCCACTGGTGGGGGTGACCACAAGGTGCGGGTATGGAACATGAAATCCTTGGGCAGGGATTTCTCAAATGAAGAATCAGCCCAAAGGCTACTACTTGCAACCCTCCGTGATCACTTTGGTTCTGTGAATTGTGTTAGGTGGGCTAAGAATGGTCGCTATCTTGCATCAGGATCTGATGATCAAGTAATTCTTATTCATGAGAGGAAGCCAGGTTCAGGAACCACTGAGTTTGGCAGTGGAGAGCCCCCTGATGTTGAGAATTGGAAAGTTGCAATGACTTTAAGAGGGCATACTGCAGATGTGGTGGATCTCAATTGGTTTCCAGATGACTCGATGCTGGCCAGTGGAAGTTTAGATAACACTATACACATCTGGAATATGAGCAATGGTATTTGCACTGCTGTTCTTAGGGGCCATTCTAGCTTGGTTAAAGGAGTTACTTGGGATCCGATTGGCTCCTTCATAGCAAGTCAATCAGATGATAAGACTGTGGCTTGGATGGTCCCCTTGTGGTCATTTCATTACTGCCACTCATGGGTTCCAGAAACAAAGGCATTCAGCACCTGTTCTAGAGAGAGGGGAATGGTCTGCTACTTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000785 GO:0000790 GO:0003674 GO:0003682 GO:0003712 GO:0003714 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005730 GO:0006323 GO:0006325 GO:0006333 GO:0006334 GO:0006336 GO:0006355 GO:0006996 GO:0008150 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0016043 GO:0019219 GO:0019222 GO:0022607 GO:0030874 GO:0030875 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031491 GO:0031497 GO:0031935 GO:0031974 GO:0031981 GO:0033043 GO:0033044 GO:0034622 GO:0034724 GO:0034728 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043933 GO:0044085 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044452 GO:0044454 GO:0044464 GO:0044877 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051128 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051276 GO:0060255 GO:0060968 GO:0065003 GO:0065004 GO:0065007 GO:0070013 GO:0071103 GO:0071824 GO:0071840 GO:0080090 GO:0140110 GO:1902275 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Hira WD40

Protein Analysis

227

Amino Acids

25.3

Weight (kDa)

6.29

Isoelectric Point (pI)

36.17

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_CAF1B_HIR1	PF24105	11 - 193	1.1e-44	CAF1B/HIR1 beta-propeller domain
Beta-prop_WDR3_1st	PF25173	11 - 100	8.6e-09	WDR3 first beta-propeller domain
WD40_Prp19	PF24814	13 - 93	7.4e-08	Prp19 WD40 domain
Beta-prop_WDR5	PF25175	15 - 192	1.6e-30	WDR5 beta-propeller domain
Beta-prop_TEP1_2nd	PF25047	29 - 95	3.3e-06	TEP-1 second beta-propeller
WD40_MABP1-WDR62_2nd	PF24782	58 - 193	1.7e-06	MABP1/WDR62 second WD40 domain
WD40	PF00400	59 - 93	1.6e-07	WD domain, G-beta repeat
WD40_CDC20-Fz	PF24807	59 - 180	5.5e-17	CDC20/Fizzy WD40 domain
Beta-prop_THOC3	PF25174	67 - 194	1.8e-22	THOC3 beta-propeller domain
Beta-prop_WDR35_TULP_N	PF24797	69 - 189	1.3e-06	WDR35/TULP4 N-terminal
WD40_Prp19	PF24814	112 - 194	1.6e-14	Prp19 WD40 domain
Beta-prop_WDR3_1st	PF25173	112 - 193	6e-15	WDR3 first beta-propeller domain
WD40_Gbeta	PF25391	112 - 192	5.9e-11	G protein beta WD-40 repeat protein
Beta-prop_WDR36-Utp21_2nd	PF25168	112 - 191	1.6e-07	WDR36/Utp21 second beta-propeller domain
Beta-prop_EML_2	PF23414	114 - 193	1.9e-08	Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR3_2nd	PF25172	116 - 192	6.9e-07	WDR3 second beta-propeller domain
WD40	PF00400	117 - 154	9.7e-10	WD domain, G-beta repeat
WD40_WDHD1_1st	PF24817	122 - 214	1.6e-10	WDHD1 first WD40 domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0017268)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g24580 FvH4_4g17140 FvH4_6g27412
prunus_persica	Prupe.8G049400_v2.0.a1
pyrus_communis	pycom05g03100
rosa_chinensis	RchiOBHm_Chr1g0317741
rosa_multiflora	Rmu_sc0002922.1_g000015 Rmu_sc0011228.1_g000009 Rmu_sc0015304.1_g000004
rosa_samantha	Rh1CG026700 Rh1CG026800 Rh1DG041900
rosa_wichuraiana	Rw0G014930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	112
AclWI	GGATC	4 cut(s)	262, 399, 524, 537
AcoI	YGGCCR	1 cut(s)	423
AcsI	RAATTY	1 cut(s)	45
AdeI	CACNNNGTG	1 cut(s)	109
AfiI	CCNNNNNNNGG	4 cut(s)	93, 138, 299, 619
AjnI	CCWGG	2 cut(s)	67, 292
AloI	GAACNNNNNNTCC	4 cut(s)	113, 145, 280, 312
AluBI	AGCT	1 cut(s)	507
AluI	AGCT	1 cut(s)	507
AlwI	GGATC	4 cut(s)	262, 399, 524, 537
AlwNI	CAGNNNCTG	2 cut(s)	257, 648
AoxI	GGCC	2 cut(s)	423, 496
ApoI	RAATTY	1 cut(s)	45
AspS9I	GGNCC	2 cut(s)	496, 586
AsuHPI	GGTGA	1 cut(s)	110
AvaII	GGWCC	1 cut(s)	586
BalI	TGGCCA	1 cut(s)	425
BamHI	GGATCC	1 cut(s)	529
BanII	GRGCYC	1 cut(s)	330
BccI	CCATC	1 cut(s)	577
BciT130I	CCWGG	2 cut(s)	69, 294
BclI	TGATCA	2 cut(s)	193, 262
BfaI	CTAG	2 cut(s)	504, 654
BfmI	CTRYAG	1 cut(s)	378
BglI	GCCNNNNNGGC	1 cut(s)	73
Bme1390I	CCNGG	2 cut(s)	69, 294
Bme18I	GGWCC	1 cut(s)	586
BmgT120I	GGNCC	2 cut(s)	496, 586
BmiI	GGNNCC	6 cut(s)	304, 497, 531, 541, 588, 624
BmrFI	CCNGG	2 cut(s)	69, 294
BmrI	ACTGGG	1 cut(s)	12
BmsI	GCATC	2 cut(s)	257, 408
BmuI	ACTGGG	1 cut(s)	12
Bpu10I	CCTNAGC	1 cut(s)	77
BsaJI	CCNNGG	1 cut(s)	132
Bsc4I	CCNNNNNNNGG	4 cut(s)	93, 138, 299, 619
Bse1I	ACTGG	3 cut(s)	18, 94, 426
Bse3DI	GCAATG	2 cut(s)	363, 475
BseBI	CCWGG	2 cut(s)	69, 294
BseDI	CCNNGG	1 cut(s)	132
BseGI	GGATG	1 cut(s)	588
BseLI	CCNNNNNNNGG	4 cut(s)	93, 138, 299, 619
BseMI	GCAATG	2 cut(s)	363, 475
BseMII	CTCAG	1 cut(s)	300
BseNI	ACTGG	3 cut(s)	18, 94, 426
BshFI	GGCC	2 cut(s)	425, 498
BslFI	GGGAC	1 cut(s)	572
BslI	CCNNNNNNNGG	4 cut(s)	93, 138, 299, 619
BsmFI	GGGAC	1 cut(s)	572
BsmI	GAATGC	1 cut(s)	638
BsnI	GGCC	2 cut(s)	425, 498
Bsp1286I	GDGCHC	1 cut(s)	330
Bsp143I	GATC	5 cut(s)	193, 254, 262, 391, 529
BspACI	CCGC	1 cut(s)	112
BspANI	GGCC	2 cut(s)	425, 498
BspCNI	CTCAG	1 cut(s)	301
BspHI	TCATGA	1 cut(s)	280
BspLI	GGNNCC	6 cut(s)	304, 497, 531, 541, 588, 624
BspMAI	CTGCAG	1 cut(s)	382
BspPI	GGATC	4 cut(s)	262, 399, 524, 537
BsrDI	GCAATG	2 cut(s)	363, 475
BsrI	ACTGG	3 cut(s)	18, 94, 426
BssECI	CCNNGG	1 cut(s)	132
BssMI	GATC	5 cut(s)	193, 254, 262, 391, 529
BssT1I	CCWWGG	1 cut(s)	132
Bst2UI	CCWGG	2 cut(s)	69, 294
Bst4CI	ACNGT	1 cut(s)	574
BstC8I	GCNNGC	1 cut(s)	423
BstDEI	CTNAG	4 cut(s)	77, 228, 309, 491
BstEII	GGTNACC	1 cut(s)	98
BstENI	CCTNNNNNAGG	1 cut(s)	136
BstF5I	GGATG	1 cut(s)	588
BstKTI	GATC	5 cut(s)	196, 257, 265, 394, 532
BstMBI	GATC	5 cut(s)	193, 254, 262, 391, 529
BstMWI	GCNNNNNNNGC	2 cut(s)	73, 504
BstNI	CCWGG	2 cut(s)	69, 294
BstPI	GGTNACC	1 cut(s)	98
BstSCI	CCNGG	2 cut(s)	67, 292
BstSFI	CTRYAG	1 cut(s)	378
BstX2I	RGATCY	3 cut(s)	254, 391, 529
BstYI	RGATCY	3 cut(s)	254, 391, 529
BsuRI	GGCC	2 cut(s)	425, 498
BtsCI	GGATG	1 cut(s)	588
BtsI	GCAGTG	2 cut(s)	325, 480
BtsIMutI	CAGTG	5 cut(s)	87, 306, 325, 433, 480
Cac8I	GCNNGC	1 cut(s)	423
CaiI	CAGNNNCTG	2 cut(s)	257, 648
CciI	TCATGA	1 cut(s)	280
Cfr13I	GGNCC	2 cut(s)	496, 586
CspCI	CAANNNNNGTGG	2 cut(s)	295, 330
CviAII	CATG	4 cut(s)	32, 124, 281, 618
DdeI	CTNAG	4 cut(s)	77, 228, 309, 491
DpnI	GATC	5 cut(s)	195, 256, 264, 393, 531
DpnII	GATC	5 cut(s)	193, 254, 262, 391, 529
DraIII	CACNNNGTG	1 cut(s)	109
EaeI	YGGCCR	1 cut(s)	423
Eco130I	CCWWGG	1 cut(s)	132
Eco24I	GRGCYC	1 cut(s)	330
Eco47I	GGWCC	1 cut(s)	586
Eco91I	GGTNACC	1 cut(s)	98
EcoNI	CCTNNNNNAGG	1 cut(s)	136
EcoO65I	GGTNACC	1 cut(s)	98
EcoRII	CCWGG	2 cut(s)	67, 292
EcoT14I	CCWWGG	1 cut(s)	132
EcoT38I	GRGCYC	1 cut(s)	330
ErhI	CCWWGG	1 cut(s)	132
FaeI	CATG	4 cut(s)	35, 127, 284, 621
FaiI	YATR	9 cut(s)	33, 118, 125, 282, 375, 449, 464, 548, 619
FalI	AAGNNNNNCTT	2 cut(s)	258, 290
FaqI	GGGAC	1 cut(s)	572
FatI	CATG	4 cut(s)	31, 123, 280, 617
FauI	CCCGC	1 cut(s)	105
FbaI	TGATCA	2 cut(s)	193, 262
FokI	GGATG	1 cut(s)	595
FriOI	GRGCYC	1 cut(s)	330
FspBI	CTAG	2 cut(s)	504, 654
HaeIII	GGCC	2 cut(s)	425, 498
Hin1II	CATG	4 cut(s)	35, 127, 284, 621
HinfI	GANTC	2 cut(s)	158, 413
HphI	GGTGA	1 cut(s)	110
Hpy188I	TCNGA	3 cut(s)	259, 534, 562
Hpy188III	TCNNGA	7 cut(s)	252, 281, 300, 407, 457, 626, 654
HpyAV	CCTTC	1 cut(s)	553
HpyCH4III	ACNGT	1 cut(s)	574
HpyCH4V	TGCA	7 cut(s)	8, 43, 182, 248, 356, 380, 480
HpyF10VI	GCNNNNNNNGC	2 cut(s)	73, 504
HpyF3I	CTNAG	4 cut(s)	77, 228, 309, 491
Hsp92II	CATG	4 cut(s)	35, 127, 284, 621
Ksp22I	TGATCA	2 cut(s)	193, 262
Kzo9I	GATC	5 cut(s)	193, 254, 262, 391, 529
LmnI	GCTCC	1 cut(s)	545
LweI	GCATC	2 cut(s)	257, 408
MaeI	CTAG	2 cut(s)	504, 654
MaeIII	GTNAC	2 cut(s)	98, 520
MalI	GATC	5 cut(s)	195, 256, 264, 393, 531
MboI	GATC	5 cut(s)	193, 254, 262, 391, 529
MboII	GAAGA	1 cut(s)	167
MfeI	CAATTG	1 cut(s)	397
MflI	RGATCY	3 cut(s)	254, 391, 529
MhlI	GDGCHC	1 cut(s)	330
MlsI	TGGCCA	1 cut(s)	425
MluCI	AATT	5 cut(s)	45, 211, 270, 343, 397
MluNI	TGGCCA	1 cut(s)	425
MlyI	GAGTC	1 cut(s)	407
MnlI	CCTC	5 cut(s)	28, 197, 279, 362, 654
Mox20I	TGGCCA	1 cut(s)	425
MscI	TGGCCA	1 cut(s)	425
MseI	TTAA	2 cut(s)	365, 513
Msp20I	TGGCCA	1 cut(s)	425
MspR9I	CCNGG	2 cut(s)	69, 294
MunI	CAATTG	1 cut(s)	397
Mva1269I	GAATGC	1 cut(s)	638
MvaI	CCWGG	2 cut(s)	69, 294
MwoI	GCNNNNNNNGC	2 cut(s)	73, 504
NdeII	GATC	5 cut(s)	193, 254, 262, 391, 529
NlaIII	CATG	4 cut(s)	35, 127, 284, 621
NlaIV	GGNNCC	6 cut(s)	304, 497, 531, 541, 588, 624
NmuCI	GTSAC	1 cut(s)	98
PagI	TCATGA	1 cut(s)	280
PctI	GAATGC	1 cut(s)	638
PfeI	GAWTC	1 cut(s)	158
PleI	GAGTC	1 cut(s)	407
PpsI	GAGTC	1 cut(s)	407
Psp6I	CCWGG	2 cut(s)	67, 292
PspEI	GGTNACC	1 cut(s)	98
PspGI	CCWGG	2 cut(s)	67, 292
PspN4I	GGNNCC	6 cut(s)	304, 497, 531, 541, 588, 624
PspPI	GGNCC	2 cut(s)	496, 586
PstI	CTGCAG	1 cut(s)	382
PstNI	CAGNNNCTG	2 cut(s)	257, 648
PsuI	RGATCY	3 cut(s)	254, 391, 529
SaqAI	TTAA	2 cut(s)	365, 513
Sau3AI	GATC	5 cut(s)	193, 254, 262, 391, 529
Sau96I	GGNCC	2 cut(s)	496, 586
SchI	GAGTC	1 cut(s)	407
ScrFI	CCNGG	2 cut(s)	69, 294
SduI	GDGCHC	1 cut(s)	330
SetI	ASST	5 cut(s)	111, 224, 298, 509, 650
SfaNI	GCATC	2 cut(s)	257, 408
SfcI	CTRYAG	1 cut(s)	378
SinI	GGWCC	1 cut(s)	586
Sse9I	AATT	5 cut(s)	45, 211, 270, 343, 397
SsiI	CCGC	1 cut(s)	112
SspMI	CTAG	2 cut(s)	504, 654
StyD4I	CCNGG	2 cut(s)	67, 292
StyI	CCWWGG	1 cut(s)	132
TaaI	ACNGT	1 cut(s)	574
TaqI	TCGA	1 cut(s)	416
TasI	AATT	5 cut(s)	45, 211, 270, 343, 397
TfiI	GAWTC	1 cut(s)	158
Tru1I	TTAA	2 cut(s)	365, 513
Tru9I	TTAA	2 cut(s)	365, 513
TscAI	CASTG	5 cut(s)	94, 313, 325, 433, 487
TseFI	GTSAC	1 cut(s)	98
Tsp45I	GTSAC	1 cut(s)	98
TspDTI	ATGAA	5 cut(s)	140, 168, 269, 535, 593
TspGWI	ACGGA	1 cut(s)	179
TspRI	CASTG	5 cut(s)	94, 313, 325, 433, 487
VpaK11BI	GGWCC	1 cut(s)	586
XagI	CCTNNNNNAGG	1 cut(s)	136
XapI	RAATTY	1 cut(s)	45
XbaI	TCTAGA	1 cut(s)	653
XspI	CTAG	2 cut(s)	504, 654

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