Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0002006

Physical Location & Seq

Genomic Coordinates Reverse (-)

86872348 .. 86874674

Gene Structure 2327 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG650800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1038 bp

ATGCAATCTTATATGATTTATGTTGGTTATCACAACGGTGGCCTTTGCCTCAAGGATCGTAATCTCATTGAAAGTCTTTTCCTTAAGGGTGATGTTCAAATTCTGTGCACAACAAATACTCTTGCTCATGGAATCAACCTACCAGCACATACAGTAGTCATAAAATCAACACAGCACTTCAACAAAGAAAAAGGAGTCTACATGGAAATTGACCGACCTACACTGCTACAGATGTGTGGGAGGGCAGGTCGGCCACCTTTTGATGATACAGGAATGGTTATAATCATGACAAGAAGAGATACGGTTCACTTGTATGAGAATCTCTTGAATGGATGTGAGATGGTGGAATCACAATTTCTTTCATGTTTGACGGAGCATTTAACTGCAGAGATAGTTCAACTGACTGTTTCTGACATTACAAGGGCAATCGAATGGATGAAGTGCTCTTTCTTGTATGTGAGAATGAAGAAGAATCCCGGATGCTATGCAGTTAGAAAAGTGATTTCCAATGATGGTATAGAAAAGCATATGCTAGAGGTCTGTTTACAGAAAGTTAATGAGTTGTCGCAGCATCAGATGATATGGACTGATGAAGATGGTTTTCTGTTGAAACCACTAGAACCTGGGAGGCTGATGATGAAGTACTATTTGAAATTTGACACAATGAAATACATTATTCAGACACCTGCAAACAGCAGCTTGGAAGATGCTCTTCATGTGATATGCCGTGCTGAGGAAATTTCATGGATACAGCTCAGGCGCAATGAGAAAAAGCTTCTAAATGACATAAACACTGATAAAGATGGTCGACTTCGCTTTCACATTCTTGGTGACAAAGGGAAGCGGAAAAGGCGTATTCAAACCAGAGAAGAAAAGATATTTCTTTTGGCTAATGACTGCTTGACTGGTGATCCTTCGGTTCGTGATTTATCCCTTACCCAGGATATGAACTCCATACGCTCAAATGGCTGTAGAATTGCTAGATGCATGAAAGAATTTTTTATTTACCAAAAGAATTACAAAGGAGCCTTGAACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000280 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005730 GO:0005737 GO:0006139 GO:0006259 GO:0006310 GO:0006725 GO:0006807 GO:0006996 GO:0007049 GO:0007127 GO:0007131 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009987 GO:0010501 GO:0016043 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022402 GO:0022414 GO:0031974 GO:0031981 GO:0034641 GO:0035825 GO:0042623 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:0044464 GO:0046483 GO:0048285 GO:0051321 GO:0061982 GO:0070013 GO:0070035 GO:0071704 GO:0071840 GO:0090304 GO:0140013 GO:0140098 GO:1901360 GO:1903046

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD HHH_5 Helicase_C PPR Sec63

Protein Analysis

345

Amino Acids

39.96

Weight (kDa)

8.72

Isoelectric Point (pI)

41.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C	PF00271	6 - 84	7.1e-08	Helicase conserved C-terminal domain
WHD_SNRNP200	PF23445	116 - 195	5.8e-13	Winged Helix-turn-helix domain
Sec63	PF02889	205 - 344	1.4e-29	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

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Orthologous Genes (Group: OG0002006)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G27730 AT3G27730 AT3G27730 AT3G27730 AT3G27730 AT3G27730 AT3G27730
fragaria_vesca	FvH4_6g51100
malus_domestica	MD09G1029000.v1.1 MD09G1029100.v1.1
prunus_persica	Prupe.3G288900_v2.0.a1
pyrus_communis	pycom111g02300 pycom111g02310
rosa_chinensis	RchiOBHm_Chr2g0089321 RchiOBHm_Chr2g0172661 RchiOBHm_Chr2g0172671
rosa_laevigata	RLG00000022075 RLG00000022122 RLG00000022126
rosa_multiflora	Rmu_sc0002053.1_g000008
rosa_roxburghii	Rroxscaffold_2G00079680 Rroxscaffold_2G00080200 Rroxscaffold_2G00080420
rosa_rugosa	Rorug01G0489000 Rorug01G0489100 Rorug02G0246000 Rorug02G0560500.1
rosa_samantha	Rh2AG637300 Rh2AG637400 Rh2AG637500 Rh2AG637900 Rh2BG650700 Rh2BG650800 Rh2BG650900 Rh2BG651500 Rh2CG045200 Rh2CG045300 Rh2CG610500 Rh2CG617200 Rh2CG617600 Rh2DG658400 Rh2DG664700 Rh2DG665400
rosa_wichuraiana	Rw2G052240 Rw2G052720

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	281
AarI	CACCTGC	1 cut(s)	694
Acc36I	ACCTGC	2 cut(s)	236, 694
AccI	GTMKAC	2 cut(s)	198, 808
AciI	CCGC	1 cut(s)	844
AclWI	GGATC	2 cut(s)	63, 905
AcoI	YGGCCR	1 cut(s)	251
AcsI	RAATTY	4 cut(s)	99, 653, 738, 995
AfaI	GTAC	1 cut(s)	644
AfiI	CCNNNNNNNGG	2 cut(s)	733, 940
AflII	CTTAAG	1 cut(s)	83
AgsI	TTSAA	9 cut(s)	71, 98, 181, 328, 398, 610, 652, 860, 1033
AjnI	CCWGG	2 cut(s)	622, 939
AleI	CACNNNNGTG	1 cut(s)	36
AluBI	AGCT	3 cut(s)	699, 754, 775
AluI	AGCT	3 cut(s)	699, 754, 775
Alw21I	GWGCWC	2 cut(s)	110, 446
Alw44I	GTGCAC	1 cut(s)	106
AlwI	GGATC	2 cut(s)	63, 905
AoxI	GGCC	2 cut(s)	40, 251
ApaLI	GTGCAC	1 cut(s)	106
ApeKI	GCWGC	2 cut(s)	568, 696
ApoI	RAATTY	4 cut(s)	99, 653, 738, 995
AspLEI	GCGC	1 cut(s)	762
AsuC2I	CCSGG	1 cut(s)	477
AsuHPI	GGTGA	3 cut(s)	101, 842, 920
BaeGI	GKGCMC	1 cut(s)	110
Bbv12I	GWGCWC	2 cut(s)	110, 446
BbvCI	CCTCAGC	1 cut(s)	732
BbvI	GCAGC	2 cut(s)	580, 708
BccI	CCATC	4 cut(s)	334, 506, 590, 797
BceAI	ACGGC	1 cut(s)	711
BciT130I	CCWGG	2 cut(s)	624, 941
BciVI	GTATCC	1 cut(s)	741
BcnI	CCSGG	1 cut(s)	477
BfaI	CTAG	4 cut(s)	533, 617, 981, 1036
BfmI	CTRYAG	3 cut(s)	227, 384, 970
BfrI	CTTAAG	1 cut(s)	83
BfuAI	ACCTGC	2 cut(s)	236, 694
BfuI	GTATCC	1 cut(s)	741
BisI	GCNGC	2 cut(s)	569, 697
BlsI	GCNGC	2 cut(s)	570, 698
BmcAI	AGTACT	1 cut(s)	644
Bme1390I	CCNGG	3 cut(s)	477, 624, 941
BmiI	GGNNCC	1 cut(s)	1027
BmrFI	CCNGG	3 cut(s)	477, 624, 941
BmsI	GCATC	4 cut(s)	470, 580, 697, 974
Bpu10I	CCTNAGC	2 cut(s)	732, 755
BpuEI	CTTGAG	1 cut(s)	35
BpuMI	CCSGG	1 cut(s)	477
BsaBI	GATNNNNATC	1 cut(s)	60
BsaJI	CCNNGG	2 cut(s)	623, 939
BsaXI	ACNNNNNCTCC	2 cut(s)	232, 262
Bsc4I	CCNNNNNNNGG	2 cut(s)	733, 940
Bse1I	ACTGG	1 cut(s)	910
Bse3DI	GCAATG	1 cut(s)	769
Bse8I	GATNNNNATC	1 cut(s)	60
BseBI	CCWGG	2 cut(s)	624, 941
BseDI	CCNNGG	2 cut(s)	623, 939
BseGI	GGATG	3 cut(s)	338, 441, 485
BseJI	GATNNNNATC	1 cut(s)	60
BseLI	CCNNNNNNNGG	2 cut(s)	733, 940
BseMI	GCAATG	1 cut(s)	769
BseMII	CTCAG	2 cut(s)	723, 769
BseNI	ACTGG	1 cut(s)	910
BseSI	GKGCMC	1 cut(s)	110
BseXI	GCAGC	2 cut(s)	580, 708
BshFI	GGCC	2 cut(s)	42, 253
BsiHKAI	GWGCWC	2 cut(s)	110, 446
BsiSI	CCGG	1 cut(s)	477
BslI	CCNNNNNNNGG	2 cut(s)	733, 940
BsnI	GGCC	2 cut(s)	42, 253
Bsp1286I	GDGCHC	2 cut(s)	110, 446
Bsp143I	GATC	2 cut(s)	55, 910
BspACI	CCGC	1 cut(s)	844
BspANI	GGCC	2 cut(s)	42, 253
BspCNI	CTCAG	2 cut(s)	724, 768
BspHI	TCATGA	1 cut(s)	285
BspLI	GGNNCC	1 cut(s)	1027
BspMAI	CTGCAG	1 cut(s)	388
BspMI	ACCTGC	2 cut(s)	236, 694
BspPI	GGATC	2 cut(s)	63, 905
BspQI	GCTCTTC	1 cut(s)	717
BspTI	CTTAAG	1 cut(s)	83
BsrDI	GCAATG	1 cut(s)	769
BsrI	ACTGG	1 cut(s)	910
BssECI	CCNNGG	2 cut(s)	623, 939
BssMI	GATC	2 cut(s)	55, 910
Bst2UI	CCWGG	2 cut(s)	624, 941
Bst4CI	ACNGT	4 cut(s)	38, 154, 304, 406
Bst6I	CTCTTC	2 cut(s)	289, 717
BstAFI	CTTAAG	1 cut(s)	83
BstDEI	CTNAG	2 cut(s)	732, 755
BstENI	CCTNNNNNAGG	1 cut(s)	938
BstF5I	GGATG	3 cut(s)	338, 441, 485
BstHHI	GCGC	1 cut(s)	762
BstKTI	GATC	2 cut(s)	58, 913
BstMBI	GATC	2 cut(s)	55, 910
BstMWI	GCNNNNNNNGC	2 cut(s)	850, 966
BstNI	CCWGG	2 cut(s)	624, 941
BstSCI	CCNGG	3 cut(s)	475, 622, 939
BstSFI	CTRYAG	3 cut(s)	227, 384, 970
BstSLI	GKGCMC	1 cut(s)	110
BstV1I	GCAGC	2 cut(s)	580, 708
BsuI	GTATCC	1 cut(s)	741
BsuRI	GGCC	2 cut(s)	42, 253
BtsCI	GGATG	3 cut(s)	338, 441, 485
BtsI	GCAGTG	1 cut(s)	221
BtsIMutI	CAGTG	2 cut(s)	221, 792
BveI	ACCTGC	2 cut(s)	236, 694
CciI	TCATGA	1 cut(s)	285
CfoI	GCGC	1 cut(s)	762
Csp6I	GTAC	1 cut(s)	643
CviAII	CATG	7 cut(s)	128, 202, 286, 363, 716, 744, 988
CviJI	RGCY	9 cut(s)	42, 253, 631, 699, 754, 775, 890, 969, 1028
CviKI_1	RGCY	9 cut(s)	42, 253, 631, 699, 754, 775, 890, 969, 1028
CviQI	GTAC	1 cut(s)	643
DdeI	CTNAG	2 cut(s)	732, 755
DpnI	GATC	2 cut(s)	57, 912
DpnII	GATC	2 cut(s)	55, 910
EaeI	YGGCCR	1 cut(s)	251
Eam1104I	CTCTTC	2 cut(s)	289, 717
EarI	CTCTTC	2 cut(s)	289, 717
EcoNI	CCTNNNNNAGG	1 cut(s)	938
EcoRII	CCWGG	2 cut(s)	622, 939
EcoT22I	ATGCAT	1 cut(s)	989
FaeI	CATG	7 cut(s)	131, 205, 289, 366, 719, 747, 991
FalI	AAGNNNNNCTT	2 cut(s)	696, 728
FatI	CATG	7 cut(s)	127, 201, 285, 362, 715, 743, 987
FauNDI	CATATG	1 cut(s)	528
FblI	GTMKAC	2 cut(s)	198, 808
Fnu4HI	GCNGC	2 cut(s)	569, 697
FokI	GGATG	3 cut(s)	345, 448, 492
Fsp4HI	GCNGC	2 cut(s)	569, 697
FspBI	CTAG	4 cut(s)	533, 617, 981, 1036
GlaI	GCGC	1 cut(s)	761
GluI	GCNGC	2 cut(s)	569, 697
HaeIII	GGCC	2 cut(s)	42, 253
HapII	CCGG	1 cut(s)	477
HhaI	GCGC	1 cut(s)	762
Hin1II	CATG	7 cut(s)	131, 205, 289, 366, 719, 747, 991
Hin6I	GCGC	1 cut(s)	760
HinP1I	GCGC	1 cut(s)	760
HincII	GTYRAC	1 cut(s)	809
HindII	GTYRAC	1 cut(s)	809
HindIII	AAGCTT	1 cut(s)	773
HinfI	GANTC	5 cut(s)	132, 195, 319, 347, 472
HpaII	CCGG	1 cut(s)	477
HphI	GGTGA	3 cut(s)	101, 842, 920
Hpy166II	GTNNAC	5 cut(s)	108, 199, 307, 545, 809
Hpy188I	TCNGA	3 cut(s)	412, 576, 681
Hpy188III	TCNNGA	3 cut(s)	286, 325, 923
Hpy8I	GTNNAC	5 cut(s)	108, 199, 307, 545, 809
HpyAV	CCTTC	1 cut(s)	924
HpyCH4III	ACNGT	4 cut(s)	38, 154, 304, 406
HpyCH4V	TGCA	6 cut(s)	4, 108, 386, 488, 689, 987
HpyF10VI	GCNNNNNNNGC	2 cut(s)	850, 966
HpyF3I	CTNAG	2 cut(s)	732, 755
Hsp92II	CATG	7 cut(s)	131, 205, 289, 366, 719, 747, 991
HspAI	GCGC	1 cut(s)	760
Kzo9I	GATC	2 cut(s)	55, 910
LguI	GCTCTTC	1 cut(s)	717
LmnI	GCTCC	2 cut(s)	373, 1025
Lsp1109I	GCAGC	2 cut(s)	580, 708
LweI	GCATC	4 cut(s)	470, 580, 697, 974
MaeI	CTAG	4 cut(s)	533, 617, 981, 1036
MaeIII	GTNAC	1 cut(s)	830
MalI	GATC	2 cut(s)	57, 912
MboI	GATC	2 cut(s)	55, 910
MboII	GAAGA	7 cut(s)	306, 478, 481, 605, 704, 716, 881
MhlI	GDGCHC	2 cut(s)	110, 446
MluCI	AATT	8 cut(s)	99, 207, 353, 653, 738, 975, 995, 1015
MlyI	GAGTC	1 cut(s)	204
MnlI	CCTC	5 cut(s)	59, 234, 529, 621, 727
Mph1103I	ATGCAT	1 cut(s)	989
MseI	TTAA	3 cut(s)	84, 380, 555
MslI	CAYNNNNRTG	2 cut(s)	36, 312
MspCI	CTTAAG	1 cut(s)	83
MspI	CCGG	1 cut(s)	477
MspR9I	CCNGG	3 cut(s)	477, 624, 941
MvaI	CCWGG	2 cut(s)	624, 941
MwoI	GCNNNNNNNGC	2 cut(s)	850, 966
NciI	CCSGG	1 cut(s)	477
NdeI	CATATG	1 cut(s)	528
NdeII	GATC	2 cut(s)	55, 910
NlaIII	CATG	7 cut(s)	131, 205, 289, 366, 719, 747, 991
NlaIV	GGNNCC	1 cut(s)	1027
NmuCI	GTSAC	1 cut(s)	830
NsiI	ATGCAT	1 cut(s)	989
OliI	CACNNNNGTG	1 cut(s)	36
PagI	TCATGA	1 cut(s)	285
PaqCI	CACCTGC	1 cut(s)	694
PciSI	GCTCTTC	1 cut(s)	717
PfeI	GAWTC	4 cut(s)	132, 319, 347, 472
PfoI	TCCNGGA	1 cut(s)	475
PkrI	GCNGC	2 cut(s)	570, 698
PleI	GAGTC	1 cut(s)	203
PpsI	GAGTC	1 cut(s)	203
PsiI	TTATAA	1 cut(s)	281
Psp6I	CCWGG	2 cut(s)	622, 939
PspGI	CCWGG	2 cut(s)	622, 939
PspN4I	GGNNCC	1 cut(s)	1027
PstI	CTGCAG	1 cut(s)	388
RsaI	GTAC	1 cut(s)	644
RsaNI	GTAC	1 cut(s)	643
RseI	CAYNNNNRTG	2 cut(s)	36, 312
SalI	GTCGAC	1 cut(s)	807
SapI	GCTCTTC	1 cut(s)	717
SaqAI	TTAA	3 cut(s)	84, 380, 555
SatI	GCNGC	2 cut(s)	569, 697
Sau3AI	GATC	2 cut(s)	55, 910
ScaI	AGTACT	1 cut(s)	644
SchI	GAGTC	1 cut(s)	204
ScrFI	CCNGG	3 cut(s)	477, 624, 941
SduI	GDGCHC	2 cut(s)	110, 446
SfaNI	GCATC	4 cut(s)	470, 580, 697, 974
SfcI	CTRYAG	3 cut(s)	227, 384, 970
SmiMI	CAYNNNNRTG	2 cut(s)	36, 312
SmlI	CTYRAG	2 cut(s)	50, 83
SmoI	CTYRAG	2 cut(s)	50, 83
Sse9I	AATT	8 cut(s)	99, 207, 353, 653, 738, 975, 995, 1015
SsiI	CCGC	1 cut(s)	844
SspMI	CTAG	4 cut(s)	533, 617, 981, 1036
StyD4I	CCNGG	3 cut(s)	475, 622, 939
TaaI	ACNGT	4 cut(s)	38, 154, 304, 406
TaqI	TCGA	2 cut(s)	429, 808
TaqII	GACCGA	1 cut(s)	228
TasI	AATT	8 cut(s)	99, 207, 353, 653, 738, 975, 995, 1015
TatI	WGTACW	1 cut(s)	642
TfiI	GAWTC	4 cut(s)	132, 319, 347, 472
Tru1I	TTAA	3 cut(s)	84, 380, 555
Tru9I	TTAA	3 cut(s)	84, 380, 555
TscAI	CASTG	2 cut(s)	228, 799
TseFI	GTSAC	1 cut(s)	830
TseI	GCWGC	2 cut(s)	568, 696
Tsp45I	GTSAC	1 cut(s)	830
TspGWI	ACGGA	1 cut(s)	386
TspRI	CASTG	2 cut(s)	228, 799
Vha464I	CTTAAG	1 cut(s)	83
VneI	GTGCAC	1 cut(s)	106
XagI	CCTNNNNNAGG	1 cut(s)	938
XapI	RAATTY	4 cut(s)	99, 653, 738, 995
XmiI	GTMKAC	2 cut(s)	198, 808
XspI	CTAG	4 cut(s)	533, 617, 981, 1036
ZrmI	AGTACT	1 cut(s)	644
Zsp2I	ATGCAT	1 cut(s)	989

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