Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0017748

Physical Location & Seq

Genomic Coordinates Forward (+)

44988685 .. 45005483

Gene Structure 16799 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG362000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 785 bp

ATGCGCTCCACATCGGAGGAGAAGGCAAAGACAAGGAGCAACACAAGGAGGGCGAGCACCATAAGGAGGGCGAGCACCACAAGAAGGAGGGCGAGCACTACAAGGATGACCACAAAAAACACAAGGACGACCACGGCGGCGATCACCACAAGAGCGAGGGCCACGACGAGCACCACAAGGACGACAAAAAGAAGAAGAAGAAGAACAAGGACAAGAAGAAGGAGGACGGACACAGCAGCAGCAGCGACAGCGATTAGCAACGTGCATGTTTGGGGCTTTTCGAGTTTTGTTTGTTGTCCTCAACTTTATGTTTCAAGAAAAGATTTCATTAGTTCCTTGAAGGACAATTTAAATGCAGAGGTGGCACTTGGAACTGTCATCGATGTCAAGAAAGTTTGTGCATGGCTTGGATATACAGACCTTTTTATAAGGATGAGGCTCAACCCTTTGGCATACGGTTATGGTAGATCCTTCCTTGAGTTTAAAGCAGAGATCTATGTAGCAGATGCTGCGCGTGCCCTTGACAAGGCAAAAATGATGCGGTTTGACGAGAAAAGTGGCAATTTTTATTGTATAGAGCTTGGTCGCATAGCAAGCAACTTTTATATTCAATACTCTAGTGTTGAAACCTACAATGAAATGTTGAAGCCTCACATGAATGAGACTGGGGTCAGCAGGAGAGAAAAGAAAGAAGGAATTGCTGCTGATCCAAATATTGACACTAAAATGAAGACAATCTCAGTTGAAGGACAAAAGAAAAACCTCCAGACTGACTACATTTTGAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD Helicase_C Sec63

Protein Analysis

261

Amino Acids

29.84

Weight (kDa)

10.51

Isoelectric Point (pI)

50.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_SNRNP200	PF23445	109 - 153	6.5e-09	Winged Helix-turn-helix domain
Sec63	PF02889	192 - 223	1e-07	Sec63 Brl domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0017748)

Species	Orthologous Gene IDs
prunus_persica	Prupe.3G238700_v2.0.a1 Prupe.6G357800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0335081 RchiOBHm_Chr7g0224331
rosa_laevigata	RLG00000022526
rosa_multiflora	Rmu_sc0040399.1_g000001
rosa_rugosa	Rorug05G0380500 Rorug06G0022000 Rorug07G0325000
rosa_samantha	Rh3CG362000 Rh3DG364900 Rh7DG366200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	428
AccII	CGCG	1 cut(s)	514
AciI	CCGC	2 cut(s)	137, 541
AclWI	GGATC	2 cut(s)	462, 701
AfiI	CCNNNNNNNGG	3 cut(s)	66, 84, 526
AgsI	TTSAA	7 cut(s)	315, 340, 611, 626, 646, 746, 784
AluBI	AGCT	1 cut(s)	580
AluI	AGCT	1 cut(s)	580
Alw21I	GWGCWC	4 cut(s)	59, 77, 98, 173
Alw26I	GTCTC	1 cut(s)	656
AlwI	GGATC	2 cut(s)	462, 701
AlwNI	CAGNNNCTG	1 cut(s)	509
AoxI	GGCC	1 cut(s)	159
ApeKI	GCWGC	5 cut(s)	236, 239, 242, 509, 701
AspLEI	GCGC	2 cut(s)	6, 514
AspS9I	GGNCC	1 cut(s)	159
AsuHPI	GGTGA	1 cut(s)	136
BaeGI	GKGCMC	1 cut(s)	520
BbsI	GAAGAC	1 cut(s)	737
Bbv12I	GWGCWC	4 cut(s)	59, 77, 98, 173
BbvI	GCAGC	5 cut(s)	248, 251, 254, 496, 688
BceAI	ACGGC	1 cut(s)	150
BcoDI	GTCTC	1 cut(s)	656
BfaI	CTAG	1 cut(s)	618
BglII	AGATCT	1 cut(s)	492
BisI	GCNGC	6 cut(s)	138, 237, 240, 243, 510, 702
BlsI	GCNGC	6 cut(s)	139, 238, 241, 244, 511, 703
BmgT120I	GGNCC	1 cut(s)	159
BmrI	ACTGGG	1 cut(s)	675
BmsI	GCATC	2 cut(s)	496, 528
BmuI	ACTGGG	1 cut(s)	675
BoxI	GACNNNNGTC	1 cut(s)	668
BpiI	GAAGAC	1 cut(s)	737
BpmI	CTGGAG	1 cut(s)	749
BpuEI	CTTGAG	1 cut(s)	497
Bsa29I	ATCGAT	1 cut(s)	381
BsaJI	CCNNGG	1 cut(s)	132
Bsc4I	CCNNNNNNNGG	3 cut(s)	66, 84, 526
Bse1I	ACTGG	1 cut(s)	670
BseCI	ATCGAT	1 cut(s)	381
BseDI	CCNNGG	1 cut(s)	132
BseGI	GGATG	2 cut(s)	111, 438
BseLI	CCNNNNNNNGG	3 cut(s)	66, 84, 526
BseMII	CTCAG	1 cut(s)	753
BseNI	ACTGG	1 cut(s)	670
BseRI	GAGGAG	1 cut(s)	32
BseSI	GKGCMC	1 cut(s)	520
BseXI	GCAGC	5 cut(s)	248, 251, 254, 496, 688
Bsh1236I	CGCG	1 cut(s)	514
BshFI	GGCC	1 cut(s)	161
BshVI	ATCGAT	1 cut(s)	381
BsiHKAI	GWGCWC	4 cut(s)	59, 77, 98, 173
BslI	CCNNNNNNNGG	3 cut(s)	66, 84, 526
BsmAI	GTCTC	1 cut(s)	656
BsnI	GGCC	1 cut(s)	161
Bsp1286I	GDGCHC	5 cut(s)	59, 77, 98, 173, 520
Bsp143I	GATC	4 cut(s)	141, 467, 492, 706
BspACI	CCGC	2 cut(s)	137, 541
BspANI	GGCC	1 cut(s)	161
BspCNI	CTCAG	1 cut(s)	752
BspDI	ATCGAT	1 cut(s)	381
BspFNI	CGCG	1 cut(s)	514
BspPI	GGATC	2 cut(s)	462, 701
BsrI	ACTGG	1 cut(s)	670
BssECI	CCNNGG	1 cut(s)	132
BssMI	GATC	4 cut(s)	141, 467, 492, 706
Bst4CI	ACNGT	2 cut(s)	376, 458
BstAPI	GCANNNNNTGC	1 cut(s)	509
BstC8I	GCNNGC	5 cut(s)	55, 73, 94, 516, 595
BstDEI	CTNAG	1 cut(s)	739
BstDSI	CCRYGG	1 cut(s)	132
BstENI	CCTNNNNNAGG	1 cut(s)	524
BstF5I	GGATG	2 cut(s)	111, 438
BstFNI	CGCG	1 cut(s)	514
BstHHI	GCGC	2 cut(s)	6, 514
BstKTI	GATC	4 cut(s)	144, 470, 495, 709
BstMAI	GTCTC	1 cut(s)	656
BstMBI	GATC	4 cut(s)	141, 467, 492, 706
BstMWI	GCNNNNNNNGC	6 cut(s)	242, 248, 362, 509, 515, 594
BstNSI	RCATGY	1 cut(s)	269
BstPAI	GACNNNNGTC	1 cut(s)	668
BstSLI	GKGCMC	1 cut(s)	520
BstUI	CGCG	1 cut(s)	514
BstV1I	GCAGC	5 cut(s)	248, 251, 254, 496, 688
BstV2I	GAAGAC	1 cut(s)	737
BstX2I	RGATCY	2 cut(s)	467, 492
BstYI	RGATCY	2 cut(s)	467, 492
Bsu15I	ATCGAT	1 cut(s)	381
BsuRI	GGCC	1 cut(s)	161
BsuTUI	ATCGAT	1 cut(s)	381
BtgI	CCRYGG	1 cut(s)	132
BtsCI	GGATG	2 cut(s)	111, 438
Cac8I	GCNNGC	5 cut(s)	55, 73, 94, 516, 595
CaiI	CAGNNNCTG	1 cut(s)	509
CfoI	GCGC	2 cut(s)	6, 514
Cfr13I	GGNCC	1 cut(s)	159
ClaI	ATCGAT	1 cut(s)	381
CviAII	CATG	3 cut(s)	266, 402, 655
CviJI	RGCY	6 cut(s)	161, 276, 406, 439, 580, 649
CviKI_1	RGCY	6 cut(s)	161, 276, 406, 439, 580, 649
DdeI	CTNAG	1 cut(s)	739
DpnI	GATC	4 cut(s)	143, 469, 494, 708
DpnII	GATC	4 cut(s)	141, 467, 492, 706
DraI	TTTAAA	2 cut(s)	351, 484
EcoNI	CCTNNNNNAGG	1 cut(s)	524
FaeI	CATG	3 cut(s)	269, 405, 658
FatI	CATG	3 cut(s)	265, 401, 654
Fnu4HI	GCNGC	6 cut(s)	138, 237, 240, 243, 510, 702
FokI	GGATG	2 cut(s)	118, 445
Fsp4HI	GCNGC	6 cut(s)	138, 237, 240, 243, 510, 702
FspBI	CTAG	1 cut(s)	618
GlaI	GCGC	2 cut(s)	5, 513
GluI	GCNGC	6 cut(s)	138, 237, 240, 243, 510, 702
GsuI	CTGGAG	1 cut(s)	749
HaeIII	GGCC	1 cut(s)	161
HhaI	GCGC	2 cut(s)	6, 514
Hin1II	CATG	3 cut(s)	269, 405, 658
Hin6I	GCGC	2 cut(s)	4, 512
HinP1I	GCGC	2 cut(s)	4, 512
HphI	GGTGA	1 cut(s)	136
Hpy188I	TCNGA	1 cut(s)	16
Hpy188III	TCNNGA	3 cut(s)	315, 388, 766
Hpy99I	CGWCG	1 cut(s)	169
HpyAV	CCTTC	7 cut(s)	16, 78, 213, 334, 481, 686, 740
HpyCH4III	ACNGT	2 cut(s)	376, 458
HpyCH4IV	ACGT	1 cut(s)	261
HpyCH4V	TGCA	3 cut(s)	265, 356, 401
HpyF10VI	GCNNNNNNNGC	6 cut(s)	242, 248, 362, 509, 515, 594
HpyF3I	CTNAG	1 cut(s)	739
HpySE526I	ACGT	1 cut(s)	261
Hsp92II	CATG	3 cut(s)	269, 405, 658
HspAI	GCGC	2 cut(s)	4, 512
Kzo9I	GATC	4 cut(s)	141, 467, 492, 706
LmnI	GCTCC	2 cut(s)	11, 36
LpnPI	CCDG	3 cut(s)	651, 661, 779
Lsp1109I	GCAGC	5 cut(s)	248, 251, 254, 496, 688
LweI	GCATC	2 cut(s)	496, 528
MaeI	CTAG	1 cut(s)	618
MaeII	ACGT	1 cut(s)	261
MalI	GATC	4 cut(s)	143, 469, 494, 708
MboI	GATC	4 cut(s)	141, 467, 492, 706
MboII	GAAGA	6 cut(s)	204, 207, 210, 213, 228, 742
MflI	RGATCY	2 cut(s)	467, 492
MhlI	GDGCHC	5 cut(s)	59, 77, 98, 173, 520
MluCI	AATT	3 cut(s)	346, 562, 696
MseI	TTAA	2 cut(s)	350, 483
MslI	CAYNNNNRTG	2 cut(s)	657, 725
MvnI	CGCG	1 cut(s)	514
MwoI	GCNNNNNNNGC	6 cut(s)	242, 248, 362, 509, 515, 594
NdeII	GATC	4 cut(s)	141, 467, 492, 706
NlaIII	CATG	3 cut(s)	269, 405, 658
NspI	RCATGY	1 cut(s)	269
PkrI	GCNGC	6 cut(s)	139, 238, 241, 244, 511, 703
PshAI	GACNNNNGTC	1 cut(s)	668
PsiI	TTATAA	1 cut(s)	428
PspPI	GGNCC	1 cut(s)	159
PstNI	CAGNNNCTG	1 cut(s)	509
PsuI	RGATCY	2 cut(s)	467, 492
RseI	CAYNNNNRTG	2 cut(s)	657, 725
SaqAI	TTAA	2 cut(s)	350, 483
SatI	GCNGC	6 cut(s)	138, 237, 240, 243, 510, 702
Sau3AI	GATC	4 cut(s)	141, 467, 492, 706
Sau96I	GGNCC	1 cut(s)	159
SduI	GDGCHC	5 cut(s)	59, 77, 98, 173, 520
SetI	ASST	6 cut(s)	264, 363, 423, 582, 632, 765
SfaNI	GCATC	2 cut(s)	496, 528
SmiI	ATTTAAAT	1 cut(s)	351
SmiMI	CAYNNNNRTG	2 cut(s)	657, 725
SmlI	CTYRAG	1 cut(s)	476
SmoI	CTYRAG	1 cut(s)	476
Sse9I	AATT	3 cut(s)	346, 562, 696
SsiI	CCGC	2 cut(s)	137, 541
SspI	AATATT	1 cut(s)	715
SspMI	CTAG	1 cut(s)	618
SwaI	ATTTAAAT	1 cut(s)	351
TaaI	ACNGT	2 cut(s)	376, 458
TaiI	ACGT	1 cut(s)	264
TaqI	TCGA	2 cut(s)	281, 381
TasI	AATT	3 cut(s)	346, 562, 696
TauI	GCSGC	1 cut(s)	140
Tru1I	TTAA	2 cut(s)	350, 483
Tru9I	TTAA	2 cut(s)	350, 483
TseI	GCWGC	5 cut(s)	236, 239, 242, 509, 701
TspDTI	ATGAA	4 cut(s)	316, 651, 671, 743
TspGWI	ACGGA	1 cut(s)	242
XagI	CCTNNNNNAGG	1 cut(s)	524
XceI	RCATGY	1 cut(s)	269
XspI	CTAG	1 cut(s)	618

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