Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0001218

Physical Location & Seq

Genomic Coordinates Reverse (-)

67149137 .. 67155349

Gene Structure 6213 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG387600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 702 bp

ATGTGGGTCGGGGATGAAATCGGGAGGTTTGGATGGGTTTGGATTGGTGTTTGGAAGGAGGGAGATGAATTAGGGGTCTGTTGTGGCAGTTCTGCTCAAGAAGAAGGCGGAGGGGAATTTAAGGATTGGGTTTCGGAGGGTGTGGGAGTCGCAGAATTTGGGGCTGGAGATAAGAGAGAGCCAAAGCTTAGAGACGCATTTGAAGCGGTTAAGGTGTTTCTGCCTTTATGTTTCAATTTCAGTCGAAGGTGGAGCAAGAGCAAACTACAGGTCATCGTTGGCACTGTAGCATTTGGTATGGGAATCAACAAACCTGATGTCAGGTTCGTCATCCATCACAGCTTGAGTAAATCAATGGAAACATACTACCAGGAAAGTGGTTGTGCTGGTCGAGATGGACTCCCTTCTCAATGCCTACTTTACTTTAGACCTGCTGACATGCCTAGGCAGAGTTCAATGGTCTTCTATGAAAACTCCGGATTGCAGAACCTTTATGACATTGTACGCTATTGTCAATCAAAAAGACAATGCCGTCGTAGCTCTTTCTTTCGCCACTTTGCTGAGCCATTACAGGACTGCAACCTCAGACTAATTCTCTCCCTCCAAAATGGAAAGAAGAGCAACTTCTCCGATGACTTCTATTCTTGTTTACATTGCAGTTTTCGTGGTTGCTGCTTATTATTCTTCATCTGTAACAGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000724 GO:0000725 GO:0003674 GO:0003676 GO:0003677 GO:0003678 GO:0003824 GO:0004003 GO:0004386 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0005737 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0008026 GO:0008094 GO:0008150 GO:0008152 GO:0009378 GO:0009987 GO:0016043 GO:0016462 GO:0016592 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0031974 GO:0031981 GO:0032392 GO:0032508 GO:0032991 GO:0033554 GO:0034641 GO:0042623 GO:0043138 GO:0043140 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0050896 GO:0051276 GO:0051716 GO:0070013 GO:0070035 GO:0071103 GO:0071704 GO:0071840 GO:0090304 GO:0097159 GO:0140097 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD HRDC Helicase_C RQC RecQ_Zn_bind

Protein Analysis

233

Amino Acids

26.52

Weight (kDa)

7.92

Isoelectric Point (pI)

52.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C	PF00271	83 - 133	8e-08	Helicase conserved C-terminal 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: OG0001218)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G48530 AT3G53970 AT3G53970
fragaria_vesca	FvH4_4g10740 FvH4_4g10740 FvH4_6g12740
malus_domestica	MD04G1138800.v1.1 MD12G1154600.v1.1
prunus_persica	Prupe.6G264400_v2.0.a1
pyrus_communis	pycom12g14680
rosa_chinensis	RchiOBHm_Chr3g0464661 RchiOBHm_Chr4g0406841 RchiOBHm_Chr4g0416021 RchiOBHm_Chr4g0419261 RchiOBHm_Chr5g0047111 RchiOBHm_Chr6g0273171
rosa_laevigata	RLG00000007821 RLG00000008752 RLG00000024677 RLG00000027129
rosa_multiflora	Rmu_sc0002031.1_g000004 Rmu_sc0002316.1_g000083 Rmu_sc0004932.1_g000003 Rmu_sc0008087.1_g000005 Rmu_sc0030142.1_g000001 Rmu_sc0042118.1_g000001
rosa_roxburghii	Rroxscaffold_1G00034330 Rroxscaffold_5G00362230 Rroxscaffold_6G00415480 Rroxscaffold_6G00417790
rosa_rugosa	Rorug03G0073600 Rorug04G0074500 Rorug04G0157800
rosa_samantha	Rh2AG335700 Rh2AG421800 Rh2CG188400 Rh2CG409000 Rh3BG135900 Rh3CG138500 Rh3DG137500 Rh4AG141300 Rh4BG137800 Rh4CG148000 Rh4CG232300 Rh4DG135100 Rh5AG387600 Rh5BG419600 Rh5CG456900 Rh5CG457000 Rh5DG415700 Rh6DG223400
rosa_wichuraiana	Rw3G011130 Rw4G011500 Rw4G018780 Rw5G019600 Rw6G002620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	531
Acc36I	ACCTGC	1 cut(s)	439
AccIII	TCCGGA	1 cut(s)	476
AciI	CCGC	2 cut(s)	108, 206
AcsI	RAATTY	2 cut(s)	116, 155
AfaI	GTAC	1 cut(s)	504
AgsI	TTSAA	3 cut(s)	203, 235, 456
AjnI	CCWGG	1 cut(s)	369
AluBI	AGCT	4 cut(s)	187, 342, 540, 699
AluI	AGCT	4 cut(s)	187, 342, 540, 699
Alw26I	GTCTC	1 cut(s)	186
Aor13HI	TCCGGA	1 cut(s)	476
ApeKI	GCWGC	1 cut(s)	672
ApoI	RAATTY	2 cut(s)	116, 155
ArsI	GACNNNNNNTTYG	4 cut(s)	255, 287, 303, 335
AspA2I	CCTAGG	1 cut(s)	443
AvrII	CCTAGG	1 cut(s)	443
BbsI	GAAGAC	1 cut(s)	454
BbvI	GCAGC	1 cut(s)	659
BccI	CCATC	3 cut(s)	27, 342, 389
BceAI	ACGGC	1 cut(s)	516
BciT130I	CCWGG	1 cut(s)	371
BcoDI	GTCTC	1 cut(s)	186
BfaI	CTAG	1 cut(s)	444
BfmI	CTRYAG	2 cut(s)	266, 285
BfuAI	ACCTGC	1 cut(s)	439
BisI	GCNGC	1 cut(s)	673
BlnI	CCTAGG	1 cut(s)	443
BlpI	GCTNAGC	1 cut(s)	561
BlsI	GCNGC	1 cut(s)	674
Bme1390I	CCNGG	1 cut(s)	371
BmrFI	CCNGG	1 cut(s)	371
BpiI	GAAGAC	1 cut(s)	454
BplI	GAGNNNNNCTC	2 cut(s)	384, 416
BpmI	CTGGAG	1 cut(s)	186
Bpu1102I	GCTNAGC	1 cut(s)	561
BpuEI	CTTGAG	2 cut(s)	81, 364
BsaJI	CCNNGG	1 cut(s)	443
BsaWI	WCCGGW	1 cut(s)	476
Bse3DI	GCAATG	1 cut(s)	652
BseAI	TCCGGA	1 cut(s)	476
BseBI	CCWGG	1 cut(s)	371
BseDI	CCNNGG	1 cut(s)	443
BseGI	GGATG	3 cut(s)	19, 38, 330
BseMI	GCAATG	1 cut(s)	652
BseMII	CTCAG	2 cut(s)	552, 598
BseXI	GCAGC	1 cut(s)	659
BsiSI	CCGG	1 cut(s)	477
BsmAI	GTCTC	1 cut(s)	186
BsmBI	CGTCTC	1 cut(s)	186
Bsp13I	TCCGGA	1 cut(s)	476
Bsp1720I	GCTNAGC	1 cut(s)	561
BspACI	CCGC	2 cut(s)	108, 206
BspCNI	CTCAG	2 cut(s)	553, 597
BspEI	TCCGGA	1 cut(s)	476
BspMI	ACCTGC	1 cut(s)	439
BspQI	GCTCTTC	1 cut(s)	611
BsrDI	GCAATG	1 cut(s)	652
BssECI	CCNNGG	1 cut(s)	443
BssT1I	CCWWGG	1 cut(s)	443
Bst2UI	CCWGG	1 cut(s)	371
Bst4CI	ACNGT	1 cut(s)	286
Bst6I	CTCTTC	1 cut(s)	611
BstDEI	CTNAG	3 cut(s)	188, 561, 584
BstF5I	GGATG	3 cut(s)	19, 38, 330
BstMAI	GTCTC	1 cut(s)	186
BstMWI	GCNNNNNNNGC	2 cut(s)	203, 537
BstNI	CCWGG	1 cut(s)	371
BstNSI	RCATGY	1 cut(s)	442
BstSCI	CCNGG	1 cut(s)	369
BstSFI	CTRYAG	2 cut(s)	266, 285
BstV1I	GCAGC	1 cut(s)	659
BstV2I	GAAGAC	1 cut(s)	454
BstXI	CCANNNNNNTGG	1 cut(s)	377
BtsCI	GGATG	3 cut(s)	19, 38, 330
BtsIMutI	CAGTG	1 cut(s)	282
BveI	ACCTGC	1 cut(s)	439
CseI	GACGC	1 cut(s)	203
Csp6I	GTAC	1 cut(s)	503
CviAII	CATG	1 cut(s)	439
CviJI	RGCY	7 cut(s)	164, 181, 187, 342, 540, 565, 699
CviKI_1	RGCY	7 cut(s)	164, 181, 187, 342, 540, 565, 699
CviQI	GTAC	1 cut(s)	503
DdeI	CTNAG	3 cut(s)	188, 561, 584
DrdI	GACNNNNNNGTC	1 cut(s)	531
DseDI	GACNNNNNNGTC	1 cut(s)	531
Eam1104I	CTCTTC	1 cut(s)	611
EarI	CTCTTC	1 cut(s)	611
EciI	GGCGGA	1 cut(s)	123
Eco130I	CCWWGG	1 cut(s)	443
EcoRII	CCWGG	1 cut(s)	369
EcoT14I	CCWWGG	1 cut(s)	443
ErhI	CCWWGG	1 cut(s)	443
Esp3I	CGTCTC	1 cut(s)	186
FaeI	CATG	1 cut(s)	442
FaiI	YATR	6 cut(s)	229, 299, 364, 440, 468, 495
FalI	AAGNNNNNCTT	2 cut(s)	608, 640
FatI	CATG	1 cut(s)	438
Fnu4HI	GCNGC	1 cut(s)	673
FokI	GGATG	3 cut(s)	26, 45, 317
Fsp4HI	GCNGC	1 cut(s)	673
FspBI	CTAG	1 cut(s)	444
GluI	GCNGC	1 cut(s)	673
GsuI	CTGGAG	1 cut(s)	186
HapII	CCGG	1 cut(s)	477
HgaI	GACGC	1 cut(s)	203
Hin1II	CATG	1 cut(s)	442
HindIII	AAGCTT	1 cut(s)	185
HinfI	GANTC	3 cut(s)	147, 303, 399
HpaII	CCGG	1 cut(s)	477
Hpy166II	GTNNAC	1 cut(s)	650
Hpy188I	TCNGA	3 cut(s)	136, 587, 631
Hpy188III	TCNNGA	4 cut(s)	22, 98, 392, 477
Hpy8I	GTNNAC	1 cut(s)	650
Hpy99I	CGWCG	1 cut(s)	537
HpyAV	CCTTC	4 cut(s)	49, 98, 240, 414
HpyCH4III	ACNGT	1 cut(s)	286
HpyCH4V	TGCA	3 cut(s)	484, 579, 657
HpyF10VI	GCNNNNNNNGC	2 cut(s)	203, 537
HpyF3I	CTNAG	3 cut(s)	188, 561, 584
Hsp92II	CATG	1 cut(s)	442
Kpn2I	TCCGGA	1 cut(s)	476
LguI	GCTCTTC	1 cut(s)	611
LmnI	GCTCC	1 cut(s)	252
Lsp1109I	GCAGC	1 cut(s)	659
MaeI	CTAG	1 cut(s)	444
MaeIII	GTNAC	1 cut(s)	692
MboII	GAAGA	4 cut(s)	113, 454, 628, 676
MluCI	AATT	5 cut(s)	68, 116, 155, 235, 591
MlyI	GAGTC	2 cut(s)	156, 393
MnlI	CCTC	6 cut(s)	18, 52, 104, 130, 593, 611
MroI	TCCGGA	1 cut(s)	476
MseI	TTAA	2 cut(s)	120, 210
MspA1I	CMGCKG	1 cut(s)	699
MspI	CCGG	1 cut(s)	477
MspR9I	CCNGG	1 cut(s)	371
MvaI	CCWGG	1 cut(s)	371
MwoI	GCNNNNNNNGC	2 cut(s)	203, 537
NlaIII	CATG	1 cut(s)	442
NspI	RCATGY	1 cut(s)	442
PciSI	GCTCTTC	1 cut(s)	611
PfeI	GAWTC	1 cut(s)	303
PkrI	GCNGC	1 cut(s)	674
PleI	GAGTC	2 cut(s)	155, 393
PpsI	GAGTC	2 cut(s)	155, 393
Psp6I	CCWGG	1 cut(s)	369
PspGI	CCWGG	1 cut(s)	369
PvuII	CAGCTG	1 cut(s)	699
RsaI	GTAC	1 cut(s)	504
RsaNI	GTAC	1 cut(s)	503
SapI	GCTCTTC	1 cut(s)	611
SaqAI	TTAA	2 cut(s)	120, 210
SatI	GCNGC	1 cut(s)	673
SchI	GAGTC	2 cut(s)	156, 393
ScrFI	CCNGG	1 cut(s)	371
SfcI	CTRYAG	2 cut(s)	266, 285
SmlI	CTYRAG	2 cut(s)	96, 343
SmoI	CTYRAG	2 cut(s)	96, 343
Sse9I	AATT	5 cut(s)	68, 116, 155, 235, 591
SsiI	CCGC	2 cut(s)	108, 206
SspMI	CTAG	1 cut(s)	444
StyD4I	CCNGG	1 cut(s)	369
StyI	CCWWGG	1 cut(s)	443
TaaI	ACNGT	1 cut(s)	286
TaqI	TCGA	2 cut(s)	244, 391
TasI	AATT	5 cut(s)	68, 116, 155, 235, 591
TfiI	GAWTC	1 cut(s)	303
Tru1I	TTAA	2 cut(s)	120, 210
Tru9I	TTAA	2 cut(s)	120, 210
TscAI	CASTG	1 cut(s)	289
TseI	GCWGC	1 cut(s)	672
TspDTI	ATGAA	4 cut(s)	30, 81, 483, 676
TspRI	CASTG	1 cut(s)	289
XapI	RAATTY	2 cut(s)	116, 155
XceI	RCATGY	1 cut(s)	442
XmaJI	CCTAGG	1 cut(s)	443
XspI	CTAG	1 cut(s)	444

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