Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0017268

Physical Location & Seq

Genomic Coordinates Reverse (-)

5312435 .. 5314029

Gene Structure 1595 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG026800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 627 bp

ATGTGTGTGTTCATCTTTGGGCAGCGGACAGTTGAGGCGTTTCTTGTTGGAGAAGTGCGGGTATGGAACATGAAATCCCTGGGCAGGGATTTCTCAAATGAAGAATCAGCCCAAAGGCTACTTGCAACCCTCCGTGATCACTTTGGTTCTGTGAATTGTGTTATGTGGGCTAAGCACGGTCAGTATCTTGCATCAGGATCTGATGATCAAGTAATTCTAATTCATGAAAGGAAGCCAGGTTCAGGAACCACTGAGTTTGGCAGTGGAGAGCCCCCTGATGTTGAGAATTGGAAAGTTGCAATGACTTTGAGAGGGCATACTGCAGATGTGGTGGATCTCAATTGGTTTCCAGATGACTTGATGCTGGCCAGTGGAAGTTTAGATAACATTATACACATCTGGAATATGAGCAATGGTATTTGCACTGTTGTTCTTAGGGGCCATTCTAGCTTGGTTAAAGGAGTTACTTGGGATCCAATTGGCTCCTTCATAGCAAGTCAATCAGATGATAAGACTGTAATTATTTGGCCAACAAGTGATTGGAGTCTTGCTCACAAAACAGACTGGGCAAAATCAGTGTGTCAATTGTGGTTTGAAGTTCTATTTTTTGTTCTATACAGTTGCTGA

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

208

Amino Acids

23.33

Weight (kDa)

5.25

Isoelectric Point (pI)

23.08

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_CAF1B_HIR1	PF24105	18 - 186	5.6e-37	CAF1B/HIR1 beta-propeller domain
WD40_CDC20-Fz	PF24807	36 - 198	7e-20	CDC20/Fizzy WD40 domain
Beta-prop_WDR5	PF25175	37 - 180	4.1e-27	WDR5 beta-propeller domain
WD40	PF00400	39 - 74	9.3e-07	WD domain, G-beta repeat
Beta-prop_WDR35_TULP_N	PF24797	50 - 175	1.3e-07	WDR35/TULP4 N-terminal
Beta-prop_THOC3	PF25174	93 - 195	2.2e-17	THOC3 beta-propeller domain
Beta-prop_WDR3_1st	PF25173	93 - 177	3.2e-16	WDR3 first beta-propeller domain
WD40_Prp19	PF24814	93 - 177	7.1e-13	Prp19 WD40 domain
WD40_Gbeta	PF25391	93 - 174	2.7e-10	G protein beta WD-40 repeat protein
Beta-prop_WDR36-Utp21_2nd	PF25168	93 - 176	8.1e-07	WDR36/Utp21 second beta-propeller domain
Beta-prop_EML_2	PF23414	95 - 197	4.8e-10	Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR3_2nd	PF25172	97 - 182	1.1e-06	WDR3 second beta-propeller domain
WD40	PF00400	98 - 135	3.9e-08	WD domain, G-beta repeat
WD40_WDHD1_1st	PF24817	104 - 195	1.8e-12	WDHD1 first WD40 domain
WD40	PF00400	140 - 176	1e-06	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: 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	2 cut(s)	25, 58
AclWI	GGATC	4 cut(s)	205, 342, 467, 480
AcoI	YGGCCR	2 cut(s)	366, 527
AfiI	CCNNNNNNNGG	3 cut(s)	84, 85, 242
AgsI	TTSAA	1 cut(s)	596
AjnI	CCWGG	2 cut(s)	78, 235
AloI	GAACNNNNNNTCC	4 cut(s)	59, 91, 223, 255
AluBI	AGCT	1 cut(s)	450
AluI	AGCT	1 cut(s)	450
AlwI	GGATC	4 cut(s)	205, 342, 467, 480
AlwNI	CAGNNNCTG	2 cut(s)	200, 624
AoxI	GGCC	3 cut(s)	366, 439, 527
ApeKI	GCWGC	1 cut(s)	22
AspS9I	GGNCC	1 cut(s)	439
BalI	TGGCCA	2 cut(s)	368, 529
BamHI	GGATCC	1 cut(s)	472
BanII	GRGCYC	1 cut(s)	273
BbvI	GCAGC	1 cut(s)	34
BciT130I	CCWGG	2 cut(s)	80, 237
BclI	TGATCA	2 cut(s)	136, 205
BfaI	CTAG	1 cut(s)	447
BfmI	CTRYAG	1 cut(s)	321
BisI	GCNGC	1 cut(s)	23
BlpI	GCTNAGC	1 cut(s)	171
BlsI	GCNGC	1 cut(s)	24
Bme1390I	CCNGG	2 cut(s)	80, 237
BmgT120I	GGNCC	1 cut(s)	439
BmiI	GGNNCC	4 cut(s)	247, 440, 474, 484
BmrFI	CCNGG	2 cut(s)	80, 237
BmrI	ACTGGG	1 cut(s)	574
BmsI	GCATC	2 cut(s)	200, 351
BmuI	ACTGGG	1 cut(s)	574
BplI	GAGNNNNNCTC	2 cut(s)	535, 567
Bpu1102I	GCTNAGC	1 cut(s)	171
BsaJI	CCNNGG	2 cut(s)	78, 79
Bsc4I	CCNNNNNNNGG	3 cut(s)	84, 85, 242
Bse1I	ACTGG	2 cut(s)	369, 569
Bse3DI	GCAATG	2 cut(s)	306, 418
BseBI	CCWGG	2 cut(s)	80, 237
BseDI	CCNNGG	2 cut(s)	78, 79
BseLI	CCNNNNNNNGG	3 cut(s)	84, 85, 242
BseMI	GCAATG	2 cut(s)	306, 418
BseMII	CTCAG	1 cut(s)	243
BseNI	ACTGG	2 cut(s)	369, 569
BseXI	GCAGC	1 cut(s)	34
BshFI	GGCC	3 cut(s)	368, 441, 529
BslI	CCNNNNNNNGG	3 cut(s)	84, 85, 242
BsnI	GGCC	3 cut(s)	368, 441, 529
Bsp1286I	GDGCHC	1 cut(s)	273
Bsp143I	GATC	5 cut(s)	136, 197, 205, 334, 472
Bsp1720I	GCTNAGC	1 cut(s)	171
BspACI	CCGC	2 cut(s)	25, 58
BspANI	GGCC	3 cut(s)	368, 441, 529
BspCNI	CTCAG	1 cut(s)	244
BspHI	TCATGA	1 cut(s)	223
BspLI	GGNNCC	4 cut(s)	247, 440, 474, 484
BspMAI	CTGCAG	1 cut(s)	325
BspPI	GGATC	4 cut(s)	205, 342, 467, 480
BsrDI	GCAATG	2 cut(s)	306, 418
BsrI	ACTGG	2 cut(s)	369, 569
BssECI	CCNNGG	2 cut(s)	78, 79
BssMI	GATC	5 cut(s)	136, 197, 205, 334, 472
Bst2UI	CCWGG	2 cut(s)	80, 237
Bst4CI	ACNGT	5 cut(s)	31, 179, 427, 517, 620
BstC8I	GCNNGC	1 cut(s)	366
BstDEI	CTNAG	3 cut(s)	171, 252, 434
BstKTI	GATC	5 cut(s)	139, 200, 208, 337, 475
BstMBI	GATC	5 cut(s)	136, 197, 205, 334, 472
BstMWI	GCNNNNNNNGC	1 cut(s)	447
BstNI	CCWGG	2 cut(s)	80, 237
BstSCI	CCNGG	2 cut(s)	78, 235
BstSFI	CTRYAG	1 cut(s)	321
BstV1I	GCAGC	1 cut(s)	34
BstX2I	RGATCY	3 cut(s)	197, 334, 472
BstYI	RGATCY	3 cut(s)	197, 334, 472
BsuRI	GGCC	3 cut(s)	368, 441, 529
BtsI	GCAGTG	1 cut(s)	268
BtsIMutI	CAGTG	5 cut(s)	249, 268, 376, 423, 582
Cac8I	GCNNGC	1 cut(s)	366
CaiI	CAGNNNCTG	2 cut(s)	200, 624
CciI	TCATGA	1 cut(s)	223
Cfr13I	GGNCC	1 cut(s)	439
CspCI	CAANNNNNGTGG	2 cut(s)	238, 273
CviAII	CATG	2 cut(s)	70, 224
DdeI	CTNAG	3 cut(s)	171, 252, 434
DpnI	GATC	5 cut(s)	138, 199, 207, 336, 474
DpnII	GATC	5 cut(s)	136, 197, 205, 334, 472
EaeI	YGGCCR	2 cut(s)	366, 527
Eco24I	GRGCYC	1 cut(s)	273
EcoRII	CCWGG	2 cut(s)	78, 235
EcoT38I	GRGCYC	1 cut(s)	273
FaeI	CATG	2 cut(s)	73, 227
FaiI	YATR	9 cut(s)	64, 71, 164, 225, 318, 392, 407, 491, 616
FatI	CATG	2 cut(s)	69, 223
FauI	CCCGC	1 cut(s)	51
FbaI	TGATCA	2 cut(s)	136, 205
Fnu4HI	GCNGC	1 cut(s)	23
FriOI	GRGCYC	1 cut(s)	273
Fsp4HI	GCNGC	1 cut(s)	23
FspBI	CTAG	1 cut(s)	447
GluI	GCNGC	1 cut(s)	23
HaeIII	GGCC	3 cut(s)	368, 441, 529
Hin1II	CATG	2 cut(s)	73, 227
HinfI	GANTC	2 cut(s)	104, 544
Hpy188I	TCNGA	2 cut(s)	202, 505
Hpy188III	TCNNGA	5 cut(s)	195, 224, 243, 350, 400
HpyAV	CCTTC	1 cut(s)	496
HpyCH4III	ACNGT	5 cut(s)	31, 179, 427, 517, 620
HpyCH4V	TGCA	5 cut(s)	125, 191, 299, 323, 423
HpyF10VI	GCNNNNNNNGC	1 cut(s)	447
HpyF3I	CTNAG	3 cut(s)	171, 252, 434
Hsp92II	CATG	2 cut(s)	73, 227
Ksp22I	TGATCA	2 cut(s)	136, 205
Kzo9I	GATC	5 cut(s)	136, 197, 205, 334, 472
LmnI	GCTCC	1 cut(s)	488
Lsp1109I	GCAGC	1 cut(s)	34
LweI	GCATC	2 cut(s)	200, 351
MaeI	CTAG	1 cut(s)	447
MaeIII	GTNAC	1 cut(s)	463
MalI	GATC	5 cut(s)	138, 199, 207, 336, 474
MboI	GATC	5 cut(s)	136, 197, 205, 334, 472
MboII	GAAGA	1 cut(s)	113
MfeI	CAATTG	3 cut(s)	340, 477, 584
MflI	RGATCY	3 cut(s)	197, 334, 472
MhlI	GDGCHC	1 cut(s)	273
MlsI	TGGCCA	2 cut(s)	368, 529
MluCI	AATT	8 cut(s)	154, 213, 219, 286, 340, 477, 519, 584
MluNI	TGGCCA	2 cut(s)	368, 529
MlyI	GAGTC	1 cut(s)	553
MmeI	TCCRAC	1 cut(s)	28
MnlI	CCTC	3 cut(s)	28, 140, 305
Mox20I	TGGCCA	2 cut(s)	368, 529
MscI	TGGCCA	2 cut(s)	368, 529
MseI	TTAA	1 cut(s)	456
Msp20I	TGGCCA	2 cut(s)	368, 529
MspA1I	CMGCKG	1 cut(s)	25
MspR9I	CCNGG	2 cut(s)	80, 237
MunI	CAATTG	3 cut(s)	340, 477, 584
MvaI	CCWGG	2 cut(s)	80, 237
MwoI	GCNNNNNNNGC	1 cut(s)	447
NdeII	GATC	5 cut(s)	136, 197, 205, 334, 472
NlaIII	CATG	2 cut(s)	73, 227
NlaIV	GGNNCC	4 cut(s)	247, 440, 474, 484
PagI	TCATGA	1 cut(s)	223
PasI	CCCWGGG	1 cut(s)	79
PfeI	GAWTC	1 cut(s)	104
PkrI	GCNGC	1 cut(s)	24
PleI	GAGTC	1 cut(s)	552
PpsI	GAGTC	1 cut(s)	552
Psp6I	CCWGG	2 cut(s)	78, 235
PspGI	CCWGG	2 cut(s)	78, 235
PspN4I	GGNNCC	4 cut(s)	247, 440, 474, 484
PspPI	GGNCC	1 cut(s)	439
PstI	CTGCAG	1 cut(s)	325
PstNI	CAGNNNCTG	2 cut(s)	200, 624
PsuI	RGATCY	3 cut(s)	197, 334, 472
SaqAI	TTAA	1 cut(s)	456
SatI	GCNGC	1 cut(s)	23
Sau3AI	GATC	5 cut(s)	136, 197, 205, 334, 472
Sau96I	GGNCC	1 cut(s)	439
SchI	GAGTC	1 cut(s)	553
ScrFI	CCNGG	2 cut(s)	80, 237
SduI	GDGCHC	1 cut(s)	273
SetI	ASST	2 cut(s)	241, 452
SfaNI	GCATC	2 cut(s)	200, 351
SfcI	CTRYAG	1 cut(s)	321
Sse9I	AATT	8 cut(s)	154, 213, 219, 286, 340, 477, 519, 584
SsiI	CCGC	2 cut(s)	25, 58
SspMI	CTAG	1 cut(s)	447
StyD4I	CCNGG	2 cut(s)	78, 235
TaaI	ACNGT	5 cut(s)	31, 179, 427, 517, 620
TasI	AATT	8 cut(s)	154, 213, 219, 286, 340, 477, 519, 584
TfiI	GAWTC	1 cut(s)	104
Tru1I	TTAA	1 cut(s)	456
Tru9I	TTAA	1 cut(s)	456
TscAI	CASTG	5 cut(s)	256, 268, 376, 430, 582
TseI	GCWGC	1 cut(s)	22
TspDTI	ATGAA	5 cut(s)	86, 114, 212, 240, 478
TspGWI	ACGGA	1 cut(s)	122
TspRI	CASTG	5 cut(s)	256, 268, 376, 430, 582
XcmI	CCANNNNNNNNNTGG	1 cut(s)	537
XspI	CTAG	1 cut(s)	447

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