Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001218

Physical Location & Seq

Genomic Coordinates Forward (+)

63461033 .. 63475498

Gene Structure 14466 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG457000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 678 bp

ATGGATCTGTATGGTCCTTCTTTACTCATCAAGTGGGGAACTAGGGATGTAATAGGTGAAGGGGAATCAAATGGAGGAAATCCTGATATTAAGAGCATTGACATAATTGCAGGGAGCTTGGCCAGTGGTGGAATCAGCCTCGAAAAGCATGGCATTTCATGCACTCTCAATCTGGGTTACAATTTTGGCTGGTGTTCTCCTTCACTTCTCTATTTCACCCAAAGGTGGAGCAAGAGCAAACTACAGGTCATCGTTGGCACTGTAGCATTTGGTATGGGAATCAACAAACCTGATGTCAGGTTCGTCATCCATCATAGCTTGAGTAAATCAATGGAAACATACTACCAGGAAAGTGGCCGTGCTGGTCGAGATGGACTCCCTTCTCAATGCCTACTTTACTTTGGACCTGCTGACATGCCTAGGCAGAGTTCAATGGTCTTCTATGAAAACTCTGGACTGCAGAACCTTTATGACATTGTACTCTATTGTCAGTCAAAAAGACAATGCGATCGTAGCTCTTTCTTTTGCCACTTTGCTGAGCCATTACAGGACTGCAATCTCAGACTAATTCTCTCCCTCCAAAACGGAAAGAAGAGCAACTTCTCCGATGACTGCTATTCTTGTTTACATTGCAGTTTTCGTGGTTGCTGGTTATTGTTCTTCATCTGTAACAGCTGA

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

225

Amino Acids

25.16

Weight (kDa)

7.48

Isoelectric Point (pI)

45.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C	PF00271	74 - 125	2.2e-10	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)
Acc36I	ACCTGC	1 cut(s)	415
AclWI	GGATC	1 cut(s)	12
AcoI	YGGCCR	2 cut(s)	120, 355
AfaI	GTAC	1 cut(s)	480
AfiI	CCNNNNNNNGG	1 cut(s)	225
AgsI	TTSAA	1 cut(s)	432
AjnI	CCWGG	1 cut(s)	345
AluBI	AGCT	4 cut(s)	117, 318, 516, 675
AluI	AGCT	4 cut(s)	117, 318, 516, 675
AlwI	GGATC	1 cut(s)	12
AoxI	GGCC	2 cut(s)	120, 355
ArsI	GACNNNNNNTTYG	4 cut(s)	231, 263, 279, 311
AspA2I	CCTAGG	1 cut(s)	419
AspS9I	GGNCC	2 cut(s)	14, 404
AsuHPI	GGTGA	2 cut(s)	68, 208
AvaII	GGWCC	2 cut(s)	14, 404
AvrII	CCTAGG	1 cut(s)	419
BalI	TGGCCA	1 cut(s)	122
BbsI	GAAGAC	1 cut(s)	430
BccI	CCATC	2 cut(s)	318, 365
BceAI	ACGGC	1 cut(s)	342
BciT130I	CCWGG	1 cut(s)	347
BfaI	CTAG	2 cut(s)	42, 420
BfmI	CTRYAG	3 cut(s)	242, 261, 458
BfuAI	ACCTGC	1 cut(s)	415
BlnI	CCTAGG	1 cut(s)	419
BlpI	GCTNAGC	1 cut(s)	537
Bme1390I	CCNGG	1 cut(s)	347
Bme18I	GGWCC	2 cut(s)	14, 404
BmgT120I	GGNCC	2 cut(s)	14, 404
BmrFI	CCNGG	1 cut(s)	347
BpiI	GAAGAC	1 cut(s)	430
BplI	GAGNNNNNCTC	2 cut(s)	360, 392
Bpu1102I	GCTNAGC	1 cut(s)	537
BpuEI	CTTGAG	1 cut(s)	340
BsaJI	CCNNGG	1 cut(s)	419
Bsc4I	CCNNNNNNNGG	1 cut(s)	225
Bse1I	ACTGG	1 cut(s)	123
Bse3DI	GCAATG	1 cut(s)	628
BseBI	CCWGG	1 cut(s)	347
BseDI	CCNNGG	1 cut(s)	419
BseGI	GGATG	2 cut(s)	52, 306
BseLI	CCNNNNNNNGG	1 cut(s)	225
BseMI	GCAATG	1 cut(s)	628
BseMII	CTCAG	2 cut(s)	528, 574
BseNI	ACTGG	1 cut(s)	123
Bsh1285I	CGRYCG	1 cut(s)	511
BshFI	GGCC	2 cut(s)	122, 357
BsiEI	CGRYCG	1 cut(s)	511
BslI	CCNNNNNNNGG	1 cut(s)	225
BsnI	GGCC	2 cut(s)	122, 357
Bsp143I	GATC	2 cut(s)	4, 508
Bsp1720I	GCTNAGC	1 cut(s)	537
BspANI	GGCC	2 cut(s)	122, 357
BspCNI	CTCAG	2 cut(s)	529, 573
BspMAI	CTGCAG	1 cut(s)	462
BspMI	ACCTGC	1 cut(s)	415
BspPI	GGATC	1 cut(s)	12
BspQI	GCTCTTC	1 cut(s)	587
BsrDI	GCAATG	1 cut(s)	628
BsrI	ACTGG	1 cut(s)	123
BssECI	CCNNGG	1 cut(s)	419
BssMI	GATC	2 cut(s)	4, 508
BssT1I	CCWWGG	1 cut(s)	419
Bst2UI	CCWGG	1 cut(s)	347
Bst4CI	ACNGT	1 cut(s)	262
Bst6I	CTCTTC	1 cut(s)	587
BstAPI	GCANNNNNTGC	1 cut(s)	159
BstDEI	CTNAG	2 cut(s)	537, 560
BstF5I	GGATG	2 cut(s)	52, 306
BstKTI	GATC	2 cut(s)	7, 511
BstMBI	GATC	2 cut(s)	4, 508
BstMCI	CGRYCG	1 cut(s)	511
BstMWI	GCNNNNNNNGC	2 cut(s)	159, 513
BstNI	CCWGG	1 cut(s)	347
BstNSI	RCATGY	1 cut(s)	418
BstSCI	CCNGG	1 cut(s)	345
BstSFI	CTRYAG	3 cut(s)	242, 261, 458
BstV2I	GAAGAC	1 cut(s)	430
BstX2I	RGATCY	1 cut(s)	4
BstXI	CCANNNNNNTGG	1 cut(s)	353
BstYI	RGATCY	1 cut(s)	4
BsuRI	GGCC	2 cut(s)	122, 357
BtsCI	GGATG	2 cut(s)	52, 306
BtsIMutI	CAGTG	2 cut(s)	130, 258
BveI	ACCTGC	1 cut(s)	415
Cfr13I	GGNCC	2 cut(s)	14, 404
Csp6I	GTAC	1 cut(s)	479
CviAII	CATG	3 cut(s)	149, 159, 415
CviJI	RGCY	9 cut(s)	117, 122, 138, 189, 318, 357, 516, 541, 675
CviKI_1	RGCY	9 cut(s)	117, 122, 138, 189, 318, 357, 516, 541, 675
CviQI	GTAC	1 cut(s)	479
DdeI	CTNAG	2 cut(s)	537, 560
DpnI	GATC	2 cut(s)	6, 510
DpnII	GATC	2 cut(s)	4, 508
EaeI	YGGCCR	2 cut(s)	120, 355
Eam1104I	CTCTTC	1 cut(s)	587
EarI	CTCTTC	1 cut(s)	587
Eco130I	CCWWGG	1 cut(s)	419
Eco47I	GGWCC	2 cut(s)	14, 404
EcoRII	CCWGG	1 cut(s)	345
EcoT14I	CCWWGG	1 cut(s)	419
ErhI	CCWWGG	1 cut(s)	419
FaeI	CATG	3 cut(s)	152, 162, 418
FalI	AAGNNNNNCTT	2 cut(s)	584, 616
FatI	CATG	3 cut(s)	148, 158, 414
FokI	GGATG	2 cut(s)	59, 293
FspBI	CTAG	2 cut(s)	42, 420
HaeIII	GGCC	2 cut(s)	122, 357
Hin1II	CATG	3 cut(s)	152, 162, 418
HinfI	GANTC	4 cut(s)	65, 132, 279, 375
HphI	GGTGA	2 cut(s)	68, 208
Hpy166II	GTNNAC	1 cut(s)	626
Hpy188I	TCNGA	2 cut(s)	563, 607
Hpy188III	TCNNGA	3 cut(s)	83, 368, 453
Hpy8I	GTNNAC	1 cut(s)	626
HpyAV	CCTTC	4 cut(s)	27, 53, 210, 390
HpyCH4III	ACNGT	1 cut(s)	262
HpyCH4V	TGCA	5 cut(s)	110, 162, 460, 555, 633
HpyF10VI	GCNNNNNNNGC	2 cut(s)	159, 513
HpyF3I	CTNAG	2 cut(s)	537, 560
Hsp92II	CATG	3 cut(s)	152, 162, 418
Kzo9I	GATC	2 cut(s)	4, 508
LguI	GCTCTTC	1 cut(s)	587
LmnI	GCTCC	2 cut(s)	114, 228
MaeI	CTAG	2 cut(s)	42, 420
MaeIII	GTNAC	2 cut(s)	176, 668
MalI	GATC	2 cut(s)	6, 510
MboI	GATC	2 cut(s)	4, 508
MboII	GAAGA	3 cut(s)	430, 604, 652
MflI	RGATCY	1 cut(s)	4
MlsI	TGGCCA	1 cut(s)	122
MluCI	AATT	3 cut(s)	105, 181, 567
MluNI	TGGCCA	1 cut(s)	122
MlyI	GAGTC	1 cut(s)	369
MnlI	CCTC	3 cut(s)	68, 149, 587
Mox20I	TGGCCA	1 cut(s)	122
MscI	TGGCCA	1 cut(s)	122
MseI	TTAA	1 cut(s)	90
Msp20I	TGGCCA	1 cut(s)	122
MspA1I	CMGCKG	1 cut(s)	675
MspR9I	CCNGG	1 cut(s)	347
MvaI	CCWGG	1 cut(s)	347
MwoI	GCNNNNNNNGC	2 cut(s)	159, 513
NdeII	GATC	2 cut(s)	4, 508
NlaIII	CATG	3 cut(s)	152, 162, 418
NspI	RCATGY	1 cut(s)	418
PciSI	GCTCTTC	1 cut(s)	587
PfeI	GAWTC	3 cut(s)	65, 132, 279
Ple19I	CGATCG	1 cut(s)	511
PleI	GAGTC	1 cut(s)	369
PpsI	GAGTC	1 cut(s)	369
Psp6I	CCWGG	1 cut(s)	345
PspGI	CCWGG	1 cut(s)	345
PspPI	GGNCC	2 cut(s)	14, 404
PstI	CTGCAG	1 cut(s)	462
PsuI	RGATCY	1 cut(s)	4
PvuI	CGATCG	1 cut(s)	511
PvuII	CAGCTG	1 cut(s)	675
RsaI	GTAC	1 cut(s)	480
RsaNI	GTAC	1 cut(s)	479
SapI	GCTCTTC	1 cut(s)	587
SaqAI	TTAA	1 cut(s)	90
Sau3AI	GATC	2 cut(s)	4, 508
Sau96I	GGNCC	2 cut(s)	14, 404
SchI	GAGTC	1 cut(s)	369
ScrFI	CCNGG	1 cut(s)	347
SfcI	CTRYAG	3 cut(s)	242, 261, 458
SinI	GGWCC	2 cut(s)	14, 404
SmlI	CTYRAG	1 cut(s)	319
SmoI	CTYRAG	1 cut(s)	319
Sse9I	AATT	3 cut(s)	105, 181, 567
SspMI	CTAG	2 cut(s)	42, 420
StyD4I	CCNGG	1 cut(s)	345
StyI	CCWWGG	1 cut(s)	419
TaaI	ACNGT	1 cut(s)	262
TaqI	TCGA	2 cut(s)	141, 367
TasI	AATT	3 cut(s)	105, 181, 567
TatI	WGTACW	1 cut(s)	478
TfiI	GAWTC	3 cut(s)	65, 132, 279
Tru1I	TTAA	1 cut(s)	90
Tru9I	TTAA	1 cut(s)	90
TscAI	CASTG	2 cut(s)	130, 265
TspDTI	ATGAA	3 cut(s)	147, 459, 652
TspGWI	ACGGA	1 cut(s)	600
TspRI	CASTG	2 cut(s)	130, 265
VpaK11BI	GGWCC	2 cut(s)	14, 404
XceI	RCATGY	1 cut(s)	418
XmaJI	CCTAGG	1 cut(s)	419
XspI	CTAG	2 cut(s)	42, 420

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