Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0000759

Physical Location & Seq

Genomic Coordinates Reverse (-)

33542115 .. 33548605

Gene Structure 6491 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG188300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 744 bp

ATGTGGATGAAAAGCAGCCACAGAAGCAAGTTTTTAAAGCTCCAAGGACGGAAGGACACTTCCAAGGCAGCTCACGATGATGGAAGAAGGATGGCATGGCCATTGTTTGCATGTAGTCCACTTAGCGTTGCTCAAATTCTGCTTGATCAAACACGACATGATGAAATACGTATTTTAGGATGCCAAACTCTTTTCGACTTTGTGAATAATCAGATGTGCATGAAATTGTTGGACAATGAGATTGGTCATCTCTCTTTTCCTTCCTCAAATTCCAGCGACAAAACCCAGTGGATTGTTCGTTTCTCGACGAAAAGATCAGGAGAGGAGGGCTTCTTCAATCTATGTAAACATTTTCACAGGGGAGGCAACCACAAAATTATTCCAACTGCAATGCTGATGGCAAGAAGAGGAATCCTAGCAGATGCAATGGGACTTTGGAAGACTGTGATGACAATTGCTCTAATACTTGCAAGACCAGGTAAAAGAGGCTCTAGTGATATCGAAATTACAAAGAAGAGGAAGATAGATTCAGATACAACTGCCCCATTGAAACCAAAGGGAGGCACTCTTGTTGTTTGTCCCCTGTCTTTGTTAAGCCAGTGGAAGGATGAGCTTGAAACTCATTCAGAGCCCGAAAGTAGTTCCATTTTTGTTCACTATGGTGGACACAGAACTGCTAACCCCAAGGCAATCTCGGTACATGATGTGGTCATGACAACATATGGTGTCTTGGTTGCAGCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0031967 GO:0031975 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HIRAN Helicase_C SNF2_N zf-C3HC4 zf-C3HC4_3

Protein Analysis

247

Amino Acids

27.63

Weight (kDa)

9.6

Isoelectric Point (pI)

47.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SNF2-rel_dom	PF00176	121 - 244	5.8e-17	SNF2-related domain

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: OG0000759)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G43530
fragaria_vesca	FvH4_4g03130 FvH4_4g03131 FvH4_4g03132 FvH4_4g03180 FvH4_4g03180 FvH4_4g03180
malus_domestica	MD16G1213200.v1.1
prunus_persica	Prupe.1G034800_v2.0.a1
pyrus_communis	pycom16g17900 pycom16g17910
rosa_chinensis	RchiOBHm_Chr4g0391421 RchiOBHm_Chr4g0391471 RchiOBHm_Chr4g0391481 RchiOBHm_Chr4g0391501 RchiOBHm_Chr4g0391631 RchiOBHm_Chr4g0391741 RchiOBHm_Chr4g0391801
rosa_laevigata	RLG00000009859 RLG00000009860 RLG00000009864 RLG00000009865 RLG00000009866 RLG00000028882 RLG00000034555
rosa_multiflora	Rmu_sc0000383.1_g000032 Rmu_sc0001174.1_g000001 Rmu_sc0001174.1_g000027 Rmu_sc0001174.1_g000030 Rmu_sc0004862.1_g000001 Rmu_sc0004862.1_g000022 Rmu_sc0007466.1_g000001 Rmu_sc0021280.1_g000001 Rmu_sc0023741.1_g000005
rosa_roxburghii	Rroxscaffold_5G00337130 Rroxscaffold_5G00337140 Rroxscaffold_5G00337170 Rroxscaffold_7G00197540
rosa_rugosa	Rorug03G0335900 Rorug03G0336000 Rorug03G0336100 Rorug03G0336400
rosa_samantha	Rh4AG037500 Rh4AG037600 Rh4AG037700 Rh4AG038300 Rh4AG038400 Rh4AG038500 Rh4AG038800 Rh4BG031800 Rh4BG032300 Rh4BG032500 Rh4BG032600 Rh4BG033000 Rh4BG137700 Rh4CG040500 Rh4CG040700 Rh4CG040800 Rh4CG041400 Rh4CG269500 Rh4DG035000 Rh4DG035100 Rh4DG035200 Rh4DG036200 Rh6DG188300
rosa_wichuraiana	Rw4G002920 Rw4G002930 Rw4G002970 Rw4G003010 Rw5G048340

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcoI	YGGCCR	1 cut(s)	98
AcsI	RAATTY	2 cut(s)	135, 268
AfaI	GTAC	1 cut(s)	699
AfiI	CCNNNNNNNGG	2 cut(s)	560, 604
AgsI	TTSAA	3 cut(s)	337, 550, 617
AjnI	CCWGG	1 cut(s)	475
AleI	CACNNNNGTG	1 cut(s)	660
AluBI	AGCT	4 cut(s)	40, 71, 613, 740
AluI	AGCT	4 cut(s)	40, 71, 613, 740
AoxI	GGCC	1 cut(s)	98
ApeKI	GCWGC	3 cut(s)	15, 68, 737
ApoI	RAATTY	2 cut(s)	135, 268
BalI	TGGCCA	1 cut(s)	100
BanII	GRGCYC	1 cut(s)	633
BbsI	GAAGAC	1 cut(s)	446
BbvI	GCAGC	2 cut(s)	27, 80
BccI	CCATC	3 cut(s)	74, 85, 391
BciT130I	CCWGG	1 cut(s)	477
BclI	TGATCA	1 cut(s)	145
BfaI	CTAG	2 cut(s)	416, 492
BisI	GCNGC	3 cut(s)	16, 69, 738
BlsI	GCNGC	3 cut(s)	17, 70, 739
Bme1390I	CCNGG	1 cut(s)	477
BmrFI	CCNGG	1 cut(s)	477
BmrI	ACTGGG	1 cut(s)	280
BmsI	GCATC	2 cut(s)	170, 412
BmuI	ACTGGG	1 cut(s)	280
BpiI	GAAGAC	1 cut(s)	446
BsaAI	YACGTR	1 cut(s)	170
BsaJI	CCNNGG	3 cut(s)	43, 63, 684
Bsc4I	CCNNNNNNNGG	2 cut(s)	560, 604
Bse1I	ACTGG	2 cut(s)	286, 598
Bse3DI	GCAATG	2 cut(s)	396, 432
BseBI	CCWGG	1 cut(s)	477
BseDI	CCNNGG	3 cut(s)	43, 63, 684
BseGI	GGATG	4 cut(s)	12, 96, 185, 613
BseLI	CCNNNNNNNGG	2 cut(s)	560, 604
BseMI	GCAATG	2 cut(s)	396, 432
BseNI	ACTGG	2 cut(s)	286, 598
BseRI	GAGGAG	1 cut(s)	338
BseXI	GCAGC	2 cut(s)	27, 80
BshFI	GGCC	1 cut(s)	100
BslFI	GGGAC	2 cut(s)	444, 564
BslI	CCNNNNNNNGG	2 cut(s)	560, 604
BsmFI	GGGAC	2 cut(s)	444, 564
BsnI	GGCC	1 cut(s)	100
Bsp1286I	GDGCHC	1 cut(s)	633
Bsp143I	GATC	2 cut(s)	145, 314
BspANI	GGCC	1 cut(s)	100
BspHI	TCATGA	1 cut(s)	711
BsrDI	GCAATG	2 cut(s)	396, 432
BsrI	ACTGG	2 cut(s)	286, 598
BssECI	CCNNGG	3 cut(s)	43, 63, 684
BssMI	GATC	2 cut(s)	145, 314
BssT1I	CCWWGG	3 cut(s)	43, 63, 684
Bst2UI	CCWGG	1 cut(s)	477
Bst4CI	ACNGT	1 cut(s)	445
Bst6I	CTCTTC	2 cut(s)	400, 509
BstBAI	YACGTR	1 cut(s)	170
BstDEI	CTNAG	1 cut(s)	122
BstF5I	GGATG	4 cut(s)	12, 96, 185, 613
BstKTI	GATC	2 cut(s)	148, 317
BstMBI	GATC	2 cut(s)	145, 314
BstMWI	GCNNNNNNNGC	1 cut(s)	24
BstNI	CCWGG	1 cut(s)	477
BstNSI	RCATGY	1 cut(s)	114
BstSCI	CCNGG	1 cut(s)	475
BstSNI	TACGTA	1 cut(s)	170
BstV1I	GCAGC	2 cut(s)	27, 80
BstV2I	GAAGAC	1 cut(s)	446
BsuRI	GGCC	1 cut(s)	100
BtsCI	GGATG	4 cut(s)	12, 96, 185, 613
BtsIMutI	CAGTG	2 cut(s)	293, 605
CciI	TCATGA	1 cut(s)	711
CsiI	ACCWGGT	1 cut(s)	475
Csp6I	GTAC	1 cut(s)	698
CviAII	CATG	6 cut(s)	96, 111, 158, 220, 701, 712
CviQI	GTAC	1 cut(s)	698
DdeI	CTNAG	1 cut(s)	122
DpnI	GATC	2 cut(s)	147, 316
DpnII	GATC	2 cut(s)	145, 314
DraI	TTTAAA	1 cut(s)	36
EaeI	YGGCCR	1 cut(s)	98
Eam1104I	CTCTTC	2 cut(s)	400, 509
EarI	CTCTTC	2 cut(s)	400, 509
Eco105I	TACGTA	1 cut(s)	170
Eco130I	CCWWGG	3 cut(s)	43, 63, 684
Eco24I	GRGCYC	1 cut(s)	633
Eco32I	GATATC	1 cut(s)	499
EcoRII	CCWGG	1 cut(s)	475
EcoRV	GATATC	1 cut(s)	499
EcoT14I	CCWWGG	3 cut(s)	43, 63, 684
EcoT38I	GRGCYC	1 cut(s)	633
ErhI	CCWWGG	3 cut(s)	43, 63, 684
FaeI	CATG	6 cut(s)	99, 114, 161, 223, 704, 715
FaqI	GGGAC	2 cut(s)	444, 564
FatI	CATG	6 cut(s)	95, 110, 157, 219, 700, 711
FauNDI	CATATG	1 cut(s)	721
FbaI	TGATCA	1 cut(s)	145
Fnu4HI	GCNGC	3 cut(s)	16, 69, 738
FokI	GGATG	4 cut(s)	19, 103, 192, 620
FriOI	GRGCYC	1 cut(s)	633
Fsp4HI	GCNGC	3 cut(s)	16, 69, 738
FspBI	CTAG	2 cut(s)	416, 492
GluI	GCNGC	3 cut(s)	16, 69, 738
HaeIII	GGCC	1 cut(s)	100
Hin1II	CATG	6 cut(s)	99, 114, 161, 223, 704, 715
HinfI	GANTC	2 cut(s)	411, 527
Hpy166II	GTNNAC	4 cut(s)	119, 347, 655, 665
Hpy188I	TCNGA	3 cut(s)	213, 532, 628
Hpy188III	TCNNGA	4 cut(s)	74, 304, 318, 712
Hpy8I	GTNNAC	4 cut(s)	119, 347, 655, 665
Hpy99I	CGWCG	1 cut(s)	310
HpyAV	CCTTC	4 cut(s)	46, 81, 270, 598
HpyCH4III	ACNGT	1 cut(s)	445
HpyCH4IV	ACGT	1 cut(s)	169
HpyCH4V	TGCA	6 cut(s)	110, 219, 389, 425, 470, 737
HpyF10VI	GCNNNNNNNGC	1 cut(s)	24
HpyF3I	CTNAG	1 cut(s)	122
HpySE526I	ACGT	1 cut(s)	169
Hsp92II	CATG	6 cut(s)	99, 114, 161, 223, 704, 715
Ksp22I	TGATCA	1 cut(s)	145
Kzo9I	GATC	2 cut(s)	145, 314
LmnI	GCTCC	1 cut(s)	45
LpnPI	CCDG	8 cut(s)	286, 299, 303, 343, 462, 489, 596, 611
Lsp1109I	GCAGC	2 cut(s)	27, 80
LweI	GCATC	2 cut(s)	170, 412
MabI	ACCWGGT	1 cut(s)	475
MaeI	CTAG	2 cut(s)	416, 492
MaeII	ACGT	1 cut(s)	169
MalI	GATC	2 cut(s)	147, 316
MboI	GATC	2 cut(s)	145, 314
MboII	GAAGA	6 cut(s)	96, 325, 417, 451, 526, 532
MfeI	CAATTG	1 cut(s)	453
MhlI	GDGCHC	1 cut(s)	633
MlsI	TGGCCA	1 cut(s)	100
MluCI	AATT	6 cut(s)	135, 224, 268, 375, 453, 504
MluNI	TGGCCA	1 cut(s)	100
MmeI	TCCRAC	2 cut(s)	210, 407
MnlI	CCTC	8 cut(s)	274, 316, 319, 356, 401, 479, 510, 554
Mox20I	TGGCCA	1 cut(s)	100
MscI	TGGCCA	1 cut(s)	100
MseI	TTAA	3 cut(s)	35, 593, 742
MslI	CAYNNNNRTG	2 cut(s)	78, 660
Msp20I	TGGCCA	1 cut(s)	100
MspR9I	CCNGG	1 cut(s)	477
MunI	CAATTG	1 cut(s)	453
MvaI	CCWGG	1 cut(s)	477
MwoI	GCNNNNNNNGC	1 cut(s)	24
NdeI	CATATG	1 cut(s)	721
NdeII	GATC	2 cut(s)	145, 314
NlaIII	CATG	6 cut(s)	99, 114, 161, 223, 704, 715
NspI	RCATGY	1 cut(s)	114
OliI	CACNNNNGTG	1 cut(s)	660
PagI	TCATGA	1 cut(s)	711
PfeI	GAWTC	2 cut(s)	411, 527
PkrI	GCNGC	3 cut(s)	17, 70, 739
Ppu21I	YACGTR	1 cut(s)	170
Psp6I	CCWGG	1 cut(s)	475
PspGI	CCWGG	1 cut(s)	475
RsaI	GTAC	1 cut(s)	699
RsaNI	GTAC	1 cut(s)	698
RseI	CAYNNNNRTG	2 cut(s)	78, 660
SaqAI	TTAA	3 cut(s)	35, 593, 742
SatI	GCNGC	3 cut(s)	16, 69, 738
Sau3AI	GATC	2 cut(s)	145, 314
ScrFI	CCNGG	1 cut(s)	477
SduI	GDGCHC	1 cut(s)	633
SetI	ASST	6 cut(s)	42, 73, 172, 481, 615, 742
SexAI	ACCWGGT	1 cut(s)	475
SfaNI	GCATC	2 cut(s)	170, 412
SmiMI	CAYNNNNRTG	2 cut(s)	78, 660
SnaBI	TACGTA	1 cut(s)	170
Sse9I	AATT	6 cut(s)	135, 224, 268, 375, 453, 504
SspMI	CTAG	2 cut(s)	416, 492
StyD4I	CCNGG	1 cut(s)	475
StyI	CCWWGG	3 cut(s)	43, 63, 684
TaaI	ACNGT	1 cut(s)	445
TaiI	ACGT	1 cut(s)	172
TaqI	TCGA	3 cut(s)	195, 305, 501
TasI	AATT	6 cut(s)	135, 224, 268, 375, 453, 504
TfiI	GAWTC	2 cut(s)	411, 527
Tru1I	TTAA	3 cut(s)	35, 593, 742
Tru9I	TTAA	3 cut(s)	35, 593, 742
TscAI	CASTG	2 cut(s)	293, 605
TseI	GCWGC	3 cut(s)	15, 68, 737
TspDTI	ATGAA	3 cut(s)	23, 177, 236
TspGWI	ACGGA	1 cut(s)	64
TspRI	CASTG	2 cut(s)	293, 605
XapI	RAATTY	2 cut(s)	135, 268
XceI	RCATGY	1 cut(s)	114
XspI	CTAG	2 cut(s)	416, 492

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