Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0001218

Physical Location & Seq

Genomic Coordinates Reverse (-)

48618545 .. 48636656

Gene Structure 18112 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG335700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 687 bp

ATGTTGCCGGCTACCGGGGTTTGCATTGTCACCTGCAGAAGTCAAATCAGCGAGGAACTGGGTATTGAGAAATGGAACGAGTTCGAGAACGAGTATGCGTTCGTGTATTTGAACTCAGAAAAGGGTTCGAAGAAGGTTCTGGTGAAGTGTCTTGTGATTGATGGAACATTGAGTGTAGATGCTTTGGCTGATGGGGCTTCTCAGAACGTTCACTGTGAATTTAATGTTGGTGATTATGTGCAAGAAAATGAGGGCAGTAATTACTCATCACAGTTTAAGAACTTGGACACCCTAGTGAAGAATCTCAACGCTCAAGTTTTGTTGAAATTGGAGGAGTCTTCCACACCCAAGGCAACAAGGTGGAGCAAGAGCAAACTACAGGTCATCGTTGGCACTGTAGCATTTGGTATGGGAATCAACAAACCTGATGTCAGGTTCGTCATCCATCACAGCTTGAGTAAATCAATGGAAACATACTACCAGGAAAGTGGCCGTGCTGGTCAAGATGGACTCCCTTCTCAATGCCTACTTTACTTTAGACCTGCTGACATGCCTAGGCAGAGTTCAATGGTCTTCTATGAAAACTCCGGACTACAGAACCTTTATGACATTGTACGCTATTGTCAGGTCATGTTTTGCGGGGTTTTGTTGGATCACGTTTATGTCAAAAAGACAATGCCGTCGTAG

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

228

Amino Acids

25.57

Weight (kDa)

5.84

Isoelectric Point (pI)

40.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PI31_Prot_N	PF11566	20 - 113	1.2e-14	PI31 proteasome regulator N-terminal
Helicase_C	PF00271	119 - 168	3.7e-09	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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Align Labels (Cladogram)

Image

Tree File

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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)
AarI	CACCTGC	1 cut(s)	41
AasI	GACNNNNNNGTC	1 cut(s)	679
Acc36I	ACCTGC	2 cut(s)	41, 550
AccIII	TCCGGA	1 cut(s)	587
AciI	CCGC	1 cut(s)	639
AclI	AACGTT	1 cut(s)	207
AclWI	GGATC	1 cut(s)	660
AcoI	YGGCCR	1 cut(s)	490
AcsI	RAATTY	1 cut(s)	218
AfaI	GTAC	1 cut(s)	615
AfiI	CCNNNNNNNGG	1 cut(s)	14
AgsI	TTSAA	3 cut(s)	112, 325, 567
AjnI	CCWGG	1 cut(s)	480
AjuI	GAANNNNNNNTTGG	2 cut(s)	210, 242
AleI	CACNNNNGTG	1 cut(s)	293
AluBI	AGCT	1 cut(s)	453
AluI	AGCT	1 cut(s)	453
AlwI	GGATC	1 cut(s)	660
Aor13HI	TCCGGA	1 cut(s)	587
AoxI	GGCC	1 cut(s)	490
ApoI	RAATTY	1 cut(s)	218
ArsI	GACNNNNNNTTYG	4 cut(s)	366, 398, 414, 446
Asp700I	GAANNNNTTC	1 cut(s)	80
AspA2I	CCTAGG	1 cut(s)	554
AsuC2I	CCSGG	1 cut(s)	16
AsuHPI	GGTGA	3 cut(s)	22, 154, 242
AsuII	TTCGAA	1 cut(s)	128
AvrII	CCTAGG	1 cut(s)	554
BbsI	GAAGAC	2 cut(s)	330, 565
BccI	CCATC	4 cut(s)	155, 185, 453, 500
BceAI	ACGGC	2 cut(s)	477, 664
BciT130I	CCWGG	1 cut(s)	482
BcnI	CCSGG	1 cut(s)	16
BfaI	CTAG	2 cut(s)	293, 555
BfmI	CTRYAG	4 cut(s)	34, 377, 396, 593
BfuAI	ACCTGC	2 cut(s)	41, 550
BlnI	CCTAGG	1 cut(s)	554
Bme1390I	CCNGG	2 cut(s)	16, 482
BmrFI	CCNGG	2 cut(s)	16, 482
BmrI	ACTGGG	1 cut(s)	68
BmsI	GCATC	1 cut(s)	169
BmuI	ACTGGG	1 cut(s)	68
BpiI	GAAGAC	2 cut(s)	330, 565
Bpu14I	TTCGAA	1 cut(s)	128
BpuEI	CTTGAG	2 cut(s)	297, 475
BpuMI	CCSGG	1 cut(s)	16
BsaJI	CCNNGG	3 cut(s)	15, 348, 554
BsaWI	WCCGGW	1 cut(s)	587
Bsc4I	CCNNNNNNNGG	1 cut(s)	14
Bse118I	RCCGGY	1 cut(s)	7
Bse1I	ACTGG	1 cut(s)	63
BseAI	TCCGGA	1 cut(s)	587
BseBI	CCWGG	1 cut(s)	482
BseDI	CCNNGG	3 cut(s)	15, 348, 554
BseGI	GGATG	1 cut(s)	441
BseLI	CCNNNNNNNGG	1 cut(s)	14
BseMII	CTCAG	2 cut(s)	129, 215
BseNI	ACTGG	1 cut(s)	63
BseRI	GAGGAG	1 cut(s)	347
BshFI	GGCC	1 cut(s)	492
BsiSI	CCGG	3 cut(s)	8, 15, 588
BslI	CCNNNNNNNGG	1 cut(s)	14
BsnI	GGCC	1 cut(s)	492
Bsp119I	TTCGAA	1 cut(s)	128
Bsp13I	TCCGGA	1 cut(s)	587
Bsp143I	GATC	1 cut(s)	652
BspACI	CCGC	1 cut(s)	639
BspANI	GGCC	1 cut(s)	492
BspCNI	CTCAG	2 cut(s)	128, 214
BspEI	TCCGGA	1 cut(s)	587
BspMAI	CTGCAG	1 cut(s)	38
BspMI	ACCTGC	2 cut(s)	41, 550
BspPI	GGATC	1 cut(s)	660
BspT104I	TTCGAA	1 cut(s)	128
BsrFI	RCCGGY	1 cut(s)	7
BsrI	ACTGG	1 cut(s)	63
BssAI	RCCGGY	1 cut(s)	7
BssECI	CCNNGG	3 cut(s)	15, 348, 554
BssMI	GATC	1 cut(s)	652
BssT1I	CCWWGG	2 cut(s)	348, 554
Bst2UI	CCWGG	1 cut(s)	482
Bst4CI	ACNGT	3 cut(s)	215, 273, 397
BstBI	TTCGAA	1 cut(s)	128
BstC8I	GCNNGC	1 cut(s)	9
BstDEI	CTNAG	2 cut(s)	115, 201
BstF5I	GGATG	1 cut(s)	441
BstKTI	GATC	1 cut(s)	655
BstMBI	GATC	1 cut(s)	652
BstMWI	GCNNNNNNNGC	1 cut(s)	194
BstNI	CCWGG	1 cut(s)	482
BstNSI	RCATGY	1 cut(s)	553
BstSCI	CCNGG	2 cut(s)	14, 480
BstSFI	CTRYAG	4 cut(s)	34, 377, 396, 593
BstV2I	GAAGAC	2 cut(s)	330, 565
BstXI	CCANNNNNNTGG	1 cut(s)	488
BsuRI	GGCC	1 cut(s)	492
BtsCI	GGATG	1 cut(s)	441
BtsIMutI	CAGTG	2 cut(s)	211, 393
BveI	ACCTGC	2 cut(s)	41, 550
Cac8I	GCNNGC	1 cut(s)	9
Cfr10I	RCCGGY	1 cut(s)	7
Csp6I	GTAC	1 cut(s)	614
CviAII	CATG	2 cut(s)	550, 631
CviJI	RGCY	5 cut(s)	11, 188, 197, 453, 492
CviKI_1	RGCY	5 cut(s)	11, 188, 197, 453, 492
CviQI	GTAC	1 cut(s)	614
DdeI	CTNAG	2 cut(s)	115, 201
DpnI	GATC	1 cut(s)	654
DpnII	GATC	1 cut(s)	652
DrdI	GACNNNNNNGTC	1 cut(s)	679
DseDI	GACNNNNNNGTC	1 cut(s)	679
EaeI	YGGCCR	1 cut(s)	490
Eco130I	CCWWGG	2 cut(s)	348, 554
EcoRII	CCWGG	1 cut(s)	480
EcoT14I	CCWWGG	2 cut(s)	348, 554
ErhI	CCWWGG	2 cut(s)	348, 554
FaeI	CATG	2 cut(s)	553, 634
FaiI	YATR	9 cut(s)	96, 237, 410, 475, 551, 579, 606, 632, 663
FatI	CATG	2 cut(s)	549, 630
FauI	CCCGC	1 cut(s)	632
FokI	GGATG	1 cut(s)	428
FspBI	CTAG	2 cut(s)	293, 555
HaeIII	GGCC	1 cut(s)	492
HapII	CCGG	3 cut(s)	8, 15, 588
Hin1II	CATG	2 cut(s)	553, 634
HinfI	GANTC	4 cut(s)	301, 335, 414, 510
HpaII	CCGG	3 cut(s)	8, 15, 588
HphI	GGTGA	3 cut(s)	22, 154, 242
Hpy166II	GTNNAC	1 cut(s)	211
Hpy188I	TCNGA	2 cut(s)	118, 204
Hpy188III	TCNNGA	3 cut(s)	85, 503, 588
Hpy8I	GTNNAC	1 cut(s)	211
Hpy99I	CGWCG	1 cut(s)	685
HpyAV	CCTTC	2 cut(s)	127, 525
HpyCH4III	ACNGT	3 cut(s)	215, 273, 397
HpyCH4IV	ACGT	2 cut(s)	207, 657
HpyCH4V	TGCA	3 cut(s)	24, 36, 241
HpyF10VI	GCNNNNNNNGC	1 cut(s)	194
HpyF3I	CTNAG	2 cut(s)	115, 201
HpySE526I	ACGT	2 cut(s)	207, 657
Hsp92II	CATG	2 cut(s)	553, 634
Kpn2I	TCCGGA	1 cut(s)	587
KroI	GCCGGC	1 cut(s)	7
KroNI	GCCGGC	1 cut(s)	9
Kzo9I	GATC	1 cut(s)	652
LmnI	GCTCC	1 cut(s)	363
LweI	GCATC	1 cut(s)	169
MaeI	CTAG	2 cut(s)	293, 555
MaeII	ACGT	2 cut(s)	207, 657
MaeIII	GTNAC	1 cut(s)	28
MalI	GATC	1 cut(s)	654
MboI	GATC	1 cut(s)	652
MboII	GAAGA	4 cut(s)	142, 310, 330, 565
MluCI	AATT	3 cut(s)	218, 259, 326
MlyI	GAGTC	2 cut(s)	344, 504
MmeI	TCCRAC	1 cut(s)	630
MnlI	CCTC	3 cut(s)	46, 244, 325
MroI	TCCGGA	1 cut(s)	587
MroNI	GCCGGC	1 cut(s)	7
MroXI	GAANNNNTTC	1 cut(s)	80
MseI	TTAA	2 cut(s)	222, 276
MslI	CAYNNNNRTG	2 cut(s)	293, 660
MspI	CCGG	3 cut(s)	8, 15, 588
MspR9I	CCNGG	2 cut(s)	16, 482
MvaI	CCWGG	1 cut(s)	482
MwoI	GCNNNNNNNGC	1 cut(s)	194
NaeI	GCCGGC	1 cut(s)	9
NciI	CCSGG	1 cut(s)	16
NdeII	GATC	1 cut(s)	652
NgoMIV	GCCGGC	1 cut(s)	7
NlaIII	CATG	2 cut(s)	553, 634
NmuCI	GTSAC	1 cut(s)	28
NspI	RCATGY	1 cut(s)	553
NspV	TTCGAA	1 cut(s)	128
OliI	CACNNNNGTG	1 cut(s)	293
PaqCI	CACCTGC	1 cut(s)	41
PdiI	GCCGGC	1 cut(s)	9
PdmI	GAANNNNTTC	1 cut(s)	80
PfeI	GAWTC	2 cut(s)	301, 414
PleI	GAGTC	2 cut(s)	343, 504
PpsI	GAGTC	2 cut(s)	343, 504
Psp1406I	AACGTT	1 cut(s)	207
Psp6I	CCWGG	1 cut(s)	480
PspGI	CCWGG	1 cut(s)	480
PstI	CTGCAG	1 cut(s)	38
RsaI	GTAC	1 cut(s)	615
RsaNI	GTAC	1 cut(s)	614
RseI	CAYNNNNRTG	2 cut(s)	293, 660
SaqAI	TTAA	2 cut(s)	222, 276
Sau3AI	GATC	1 cut(s)	652
SchI	GAGTC	2 cut(s)	344, 504
ScrFI	CCNGG	2 cut(s)	16, 482
SfaNI	GCATC	1 cut(s)	169
SfcI	CTRYAG	4 cut(s)	34, 377, 396, 593
SfuI	TTCGAA	1 cut(s)	128
SmiMI	CAYNNNNRTG	2 cut(s)	293, 660
SmlI	CTYRAG	2 cut(s)	312, 454
SmoI	CTYRAG	2 cut(s)	312, 454
Sse9I	AATT	3 cut(s)	218, 259, 326
SsiI	CCGC	1 cut(s)	639
SspMI	CTAG	2 cut(s)	293, 555
StyD4I	CCNGG	2 cut(s)	14, 480
StyI	CCWWGG	2 cut(s)	348, 554
TaaI	ACNGT	3 cut(s)	215, 273, 397
TaiI	ACGT	2 cut(s)	210, 660
TaqI	TCGA	2 cut(s)	84, 128
TasI	AATT	3 cut(s)	218, 259, 326
TfiI	GAWTC	2 cut(s)	301, 414
Tru1I	TTAA	2 cut(s)	222, 276
Tru9I	TTAA	2 cut(s)	222, 276
TscAI	CASTG	2 cut(s)	218, 400
TseFI	GTSAC	1 cut(s)	28
Tsp45I	GTSAC	1 cut(s)	28
TspDTI	ATGAA	1 cut(s)	594
TspRI	CASTG	2 cut(s)	218, 400
XapI	RAATTY	1 cut(s)	218
XceI	RCATGY	1 cut(s)	553
XmaJI	CCTAGG	1 cut(s)	554
XmnI	GAANNNNTTC	1 cut(s)	80
XspI	CTAG	2 cut(s)	293, 555

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