Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0001022

Physical Location & Seq

Genomic Coordinates Reverse (-)

16099894 .. 16102819

Gene Structure 2926 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG182700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 969 bp

ATGGAGGTTTTTCAGAAGATGGGGAAATACACTGGGATTACTTCGGAGTGTGCCGTCCCTTCAGATAGGGAGAGGAATGCACCTTCGCCTAATTTCCGGGTGCCAGTTACGGCACAAATTGTGATTGGAACTCCTGGTACTATCAGGAGATGGATGTCGATGAAAAAGCTGGGTGTAAGCCGCGTGAAGGTCCTTGTTTTCGATGAGGCTGATCACATGCTGGCTGAGGATGGCTTCCAAGATGATTCCTTAAGGATAAAGAGGGACACAGAAAAAGTTATCCCTAACTGCCAGGTTATTCTGTTTTCAGCTACATTTAATGAAAGAGTCACAAATTTTGTCTCAAGCGTTGTGAAATGTGGTAACAAGCAACTTTTTGTCAAGAAAGAAGAGCTATCTTTGGAGGGTGTTAAGCAGTACAAGGTGTACTGTCCTGATGAACTGAGCAAGATTGAGGTTATCAAGACCAAAATTTTTGACCTGGGAGAAAAATTAGGACAGAGGATTATATTTGTTCGGACAAAAAATAGCGCAAGAATGTTGTATCAACAACTTTCTGATGATGGTTATGCTGTTACTGCTATTCAAGGTGCCCTCAACACCGAAGACAGAGACAAAATAATCAAAGAGTTTAAAGATGGTTTAACCCAAGTTCTCATATCAACTGATGTACTTGCCAGAGGCTTTGACCAACAGCAGGTTAACTGTGTTGTTAATTATGATCTTCCGGTCAAATTTTCACCTGATCCCCGGTCACAACCTGTAGAACCTGATTATGAGGTGTACCTGCATAGAATTGGGAGGGCAGGGCGTTTTGGTCGCAAGGGAGCTGTGTTTAACGTGATTTGCGATGATAATGACGAGTTGGTCATGTCAAAAATTGGGCAGTATTTTGACATCAAAGTACCAGTGGTTAAAAATACTGATGAGGCTTTTGAAGGGGCTCTTAAAACAGCTGGCTTACTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005730 GO:0005737 GO:0005886 GO:0006139 GO:0006403 GO:0006405 GO:0006406 GO:0006611 GO:0006725 GO:0006807 GO:0006810 GO:0006886 GO:0006913 GO:0006950 GO:0008026 GO:0008104 GO:0008150 GO:0008152 GO:0008186 GO:0009266 GO:0009408 GO:0009409 GO:0009628 GO:0009719 GO:0009725 GO:0009737 GO:0009987 GO:0010033 GO:0010467 GO:0010501 GO:0012505 GO:0015031 GO:0015833 GO:0015931 GO:0016020 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0016973 GO:0017111 GO:0031503 GO:0031967 GO:0031974 GO:0031975 GO:0031981 GO:0033036 GO:0033993 GO:0034613 GO:0034641 GO:0042221 GO:0042623 GO:0042886 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045184 GO:0046483 GO:0046907 GO:0050657 GO:0050658 GO:0050896 GO:0051028 GO:0051168 GO:0051169 GO:0051179 GO:0051234 GO:0051236 GO:0051641 GO:0051649 GO:0070013 GO:0070035 GO:0070727 GO:0071166 GO:0071426 GO:0071427 GO:0071702 GO:0071704 GO:0071705 GO:0071944 GO:0090304 GO:0097305 GO:0140098 GO:1901360 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

322

Amino Acids

36.32

Weight (kDa)

8.09

Isoelectric Point (pI)

33.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	2 - 111	8.7e-15	DEAD/DEAH box helicase
Helicase_C	PF00271	154 - 273	1.9e-25	Helicase conserved C-terminal 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: OG0001022)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G53110
fragaria_vesca	FvH4_6g17230 FvH4_6g17230 FvH4_6g17230 FvH4_6g17280 FvH4_6g17280
malus_domestica	MD12G1102600.v1.1 MD14G1096800.v1.1
prunus_persica	Prupe.3G009100_v2.0.a1 Prupe.7G122600_v2.0.a1
pyrus_communis	pycom03g08760 pycom12g10060 pycom14g09450
rosa_chinensis	RchiOBHm_Chr3g0471311 RchiOBHm_Chr3g0471321 RchiOBHm_Chr3g0471361 RchiOBHm_Chr3g0471391
rosa_laevigata	RLG00000024181 RLG00000024187 RLG00000024188
rosa_multiflora	Rmu_sc0006582.1_g000015 Rmu_sc0006582.1_g000018 Rmu_sc0009082.1_g000003 Rmu_sc0010513.1_g000003 Rmu_sc0015755.1_g000002 Rmu_sc0030425.1_g000001
rosa_roxburghii	Rroxscaffold_6G00409980 Rroxscaffold_6G00410000 Rroxscaffold_6G00410060 Rroxscaffold_6G00410080
rosa_rugosa	Rorug03G0117100 Rorug03G0117100 Rorug03G0117100 Rorug03G0117400 Rorug03G0117500 Rorug03G0117500
rosa_samantha	Rh3AG166500 Rh3AG166600 Rh3AG166700 Rh3AG167100 Rh3BG191900 Rh3BG192000 Rh3BG192100 Rh3BG192400 Rh3BG192500 Rh3BG192800 Rh3CG182200 Rh3CG182300 Rh3CG182400 Rh3CG182700 Rh3CG182800 Rh3CG183200 Rh3DG182700 Rh3DG183100 Rh3DG183200 Rh3DG183700 Rh3DG183800
rosa_wichuraiana	Rw3G015670 Rw3G015680 Rw3G015730 Rw3G015760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	866
Acc36I	ACCTGC	2 cut(s)	688, 795
AccB1I	GGYRCC	2 cut(s)	100, 590
AccII	CGCG	1 cut(s)	183
AciI	CCGC	1 cut(s)	181
AclWI	GGATC	1 cut(s)	740
AcsI	RAATTY	3 cut(s)	334, 471, 734
AcuI	CTGAAG	1 cut(s)	45
AfaI	GTAC	6 cut(s)	139, 419, 428, 672, 785, 906
AfiI	CCNNNNNNNGG	2 cut(s)	187, 697
AflII	CTTAAG	1 cut(s)	250
AgsI	TTSAA	2 cut(s)	587, 938
AjnI	CCWGG	3 cut(s)	133, 291, 480
AluBI	AGCT	5 cut(s)	169, 311, 394, 830, 956
AluI	AGCT	5 cut(s)	169, 311, 394, 830, 956
Alw26I	GTCTC	2 cut(s)	346, 606
AlwI	GGATC	1 cut(s)	740
ApoI	RAATTY	3 cut(s)	334, 471, 734
AspLEI	GCGC	1 cut(s)	533
AspS9I	GGNCC	1 cut(s)	190
AsuC2I	CCSGG	2 cut(s)	98, 751
AsuHPI	GGTGA	1 cut(s)	732
AvaII	GGWCC	1 cut(s)	190
BaeGI	GKGCMC	1 cut(s)	595
BanI	GGYRCC	2 cut(s)	100, 590
BanII	GRGCYC	1 cut(s)	946
BbsI	GAAGAC	1 cut(s)	612
BbvCI	CCTCAGC	1 cut(s)	225
BccI	CCATC	5 cut(s)	13, 144, 224, 557, 632
BceAI	ACGGC	2 cut(s)	38, 126
BciT130I	CCWGG	3 cut(s)	135, 293, 482
BclI	TGATCA	1 cut(s)	211
BcnI	CCSGG	2 cut(s)	98, 751
BcoDI	GTCTC	2 cut(s)	346, 606
BfmI	CTRYAG	1 cut(s)	762
BfrI	CTTAAG	1 cut(s)	250
BfuAI	ACCTGC	2 cut(s)	688, 795
BisI	GCNGC	1 cut(s)	181
BlsI	GCNGC	1 cut(s)	182
Bme1390I	CCNGG	5 cut(s)	98, 135, 293, 482, 751
Bme18I	GGWCC	1 cut(s)	190
BmgT120I	GGNCC	1 cut(s)	190
BmiI	GGNNCC	2 cut(s)	102, 592
BmrFI	CCNGG	5 cut(s)	98, 135, 293, 482, 751
BmrI	ACTGGG	1 cut(s)	42
BmuI	ACTGGG	1 cut(s)	42
BpiI	GAAGAC	1 cut(s)	612
Bpu10I	CCTNAGC	1 cut(s)	225
BpuEI	CTTGAG	1 cut(s)	328
BpuMI	CCSGG	2 cut(s)	98, 751
BsaJI	CCNNGG	2 cut(s)	481, 749
BsaWI	WCCGGW	1 cut(s)	727
Bsc4I	CCNNNNNNNGG	2 cut(s)	187, 697
Bse1I	ACTGG	3 cut(s)	37, 104, 908
BseBI	CCWGG	3 cut(s)	135, 293, 482
BseDI	CCNNGG	2 cut(s)	481, 749
BseGI	GGATG	2 cut(s)	159, 235
BseLI	CCNNNNNNNGG	2 cut(s)	187, 697
BseMII	CTCAG	2 cut(s)	216, 434
BseNI	ACTGG	3 cut(s)	37, 104, 908
BseSI	GKGCMC	1 cut(s)	595
BseYI	CCCAGC	1 cut(s)	169
Bsh1236I	CGCG	1 cut(s)	183
BshNI	GGYRCC	2 cut(s)	100, 590
BsiSI	CCGG	3 cut(s)	97, 728, 751
BslFI	GGGAC	2 cut(s)	41, 278
BslI	CCNNNNNNNGG	2 cut(s)	187, 697
BsmAI	GTCTC	2 cut(s)	346, 606
BsmFI	GGGAC	2 cut(s)	41, 278
BsmI	GAATGC	1 cut(s)	82
Bsp1286I	GDGCHC	2 cut(s)	595, 946
Bsp143I	GATC	3 cut(s)	211, 721, 745
BspACI	CCGC	1 cut(s)	181
BspCNI	CTCAG	2 cut(s)	217, 435
BspFNI	CGCG	1 cut(s)	183
BspLI	GGNNCC	2 cut(s)	102, 592
BspMI	ACCTGC	2 cut(s)	688, 795
BspPI	GGATC	1 cut(s)	740
BspQI	GCTCTTC	1 cut(s)	384
BspT107I	GGYRCC	2 cut(s)	100, 590
BspTI	CTTAAG	1 cut(s)	250
BsrI	ACTGG	3 cut(s)	37, 104, 908
BssECI	CCNNGG	2 cut(s)	481, 749
BssMI	GATC	3 cut(s)	211, 721, 745
Bst2UI	CCWGG	3 cut(s)	135, 293, 482
Bst4CI	ACNGT	3 cut(s)	431, 707, 966
Bst6I	CTCTTC	1 cut(s)	384
BstAFI	CTTAAG	1 cut(s)	250
BstC8I	GCNNGC	2 cut(s)	222, 958
BstDEI	CTNAG	2 cut(s)	225, 443
BstF5I	GGATG	2 cut(s)	159, 235
BstFNI	CGCG	1 cut(s)	183
BstHHI	GCGC	1 cut(s)	533
BstKTI	GATC	3 cut(s)	214, 724, 748
BstMAI	GTCTC	2 cut(s)	346, 606
BstMBI	GATC	3 cut(s)	211, 721, 745
BstMWI	GCNNNNNNNGC	1 cut(s)	578
BstNI	CCWGG	3 cut(s)	135, 293, 482
BstNSI	RCATGY	1 cut(s)	220
BstSCI	CCNGG	5 cut(s)	96, 133, 291, 480, 749
BstSFI	CTRYAG	1 cut(s)	762
BstSLI	GKGCMC	1 cut(s)	595
BstUI	CGCG	1 cut(s)	183
BstV2I	GAAGAC	1 cut(s)	612
BtgZI	GCGATG	1 cut(s)	864
BtsCI	GGATG	2 cut(s)	159, 235
BtsIMutI	CAGTG	2 cut(s)	30, 915
BveI	ACCTGC	2 cut(s)	688, 795
Cac8I	GCNNGC	2 cut(s)	222, 958
CfoI	GCGC	1 cut(s)	533
Cfr13I	GGNCC	1 cut(s)	190
Csp6I	GTAC	6 cut(s)	138, 418, 427, 671, 784, 905
CviAII	CATG	2 cut(s)	217, 871
CviQI	GTAC	6 cut(s)	138, 418, 427, 671, 784, 905
DdeI	CTNAG	2 cut(s)	225, 443
DpnI	GATC	3 cut(s)	213, 723, 747
DpnII	GATC	3 cut(s)	211, 721, 745
DraI	TTTAAA	1 cut(s)	634
DrdI	GACNNNNNNGTC	1 cut(s)	866
DseDI	GACNNNNNNGTC	1 cut(s)	866
Eam1104I	CTCTTC	1 cut(s)	384
EarI	CTCTTC	1 cut(s)	384
Eco24I	GRGCYC	1 cut(s)	946
Eco47I	GGWCC	1 cut(s)	190
Eco57I	CTGAAG	1 cut(s)	45
EcoO109I	RGGNCCY	1 cut(s)	190
EcoRII	CCWGG	3 cut(s)	133, 291, 480
EcoT38I	GRGCYC	1 cut(s)	946
FaeI	CATG	2 cut(s)	220, 874
FaiI	YATR	8 cut(s)	218, 509, 570, 659, 720, 777, 792, 872
FalI	AAGNNNNNCTT	2 cut(s)	930, 962
FaqI	GGGAC	2 cut(s)	41, 278
FatI	CATG	2 cut(s)	216, 870
FbaI	TGATCA	1 cut(s)	211
Fnu4HI	GCNGC	1 cut(s)	181
FokI	GGATG	2 cut(s)	166, 242
FriOI	GRGCYC	1 cut(s)	946
Fsp4HI	GCNGC	1 cut(s)	181
GlaI	GCGC	1 cut(s)	532
GluI	GCNGC	1 cut(s)	181
GsaI	CCCAGC	1 cut(s)	173
HapII	CCGG	3 cut(s)	97, 728, 751
HhaI	GCGC	1 cut(s)	533
Hin1II	CATG	2 cut(s)	220, 874
Hin6I	GCGC	1 cut(s)	531
HinP1I	GCGC	1 cut(s)	531
HincII	GTYRAC	1 cut(s)	703
HindII	GTYRAC	1 cut(s)	703
HinfI	GANTC	2 cut(s)	245, 327
HpaI	GTTAAC	1 cut(s)	703
HpaII	CCGG	3 cut(s)	97, 728, 751
HphI	GGTGA	1 cut(s)	732
Hpy166II	GTNNAC	3 cut(s)	427, 703, 784
Hpy188I	TCNGA	5 cut(s)	15, 46, 64, 519, 559
Hpy188III	TCNNGA	4 cut(s)	145, 382, 434, 463
Hpy8I	GTNNAC	3 cut(s)	427, 703, 784
HpyAV	CCTTC	4 cut(s)	69, 93, 181, 932
HpyCH4III	ACNGT	3 cut(s)	431, 707, 966
HpyCH4IV	ACGT	1 cut(s)	840
HpyCH4V	TGCA	2 cut(s)	80, 790
HpyF10VI	GCNNNNNNNGC	1 cut(s)	578
HpyF3I	CTNAG	2 cut(s)	225, 443
HpySE526I	ACGT	1 cut(s)	840
Hsp92II	CATG	2 cut(s)	220, 874
HspAI	GCGC	1 cut(s)	531
Ksp22I	TGATCA	1 cut(s)	211
KspAI	GTTAAC	1 cut(s)	703
Kzo9I	GATC	3 cut(s)	211, 721, 745
LguI	GCTCTTC	1 cut(s)	384
LmnI	GCTCC	1 cut(s)	827
MaeII	ACGT	1 cut(s)	840
MaeIII	GTNAC	5 cut(s)	106, 328, 362, 574, 753
MalI	GATC	3 cut(s)	213, 723, 747
MboI	GATC	3 cut(s)	211, 721, 745
MboII	GAAGA	4 cut(s)	28, 401, 617, 716
MhlI	GDGCHC	2 cut(s)	595, 946
MluCI	AATT	9 cut(s)	91, 117, 334, 471, 491, 715, 734, 795, 879
MlyI	GAGTC	1 cut(s)	336
MspA1I	CMGCKG	1 cut(s)	956
MspCI	CTTAAG	1 cut(s)	250
MspI	CCGG	3 cut(s)	97, 728, 751
MspR9I	CCNGG	5 cut(s)	98, 135, 293, 482, 751
Mva1269I	GAATGC	1 cut(s)	82
MvaI	CCWGG	3 cut(s)	135, 293, 482
MvnI	CGCG	1 cut(s)	183
MwoI	GCNNNNNNNGC	1 cut(s)	578
NciI	CCSGG	2 cut(s)	98, 751
NdeII	GATC	3 cut(s)	211, 721, 745
NlaIII	CATG	2 cut(s)	220, 874
NlaIV	GGNNCC	2 cut(s)	102, 592
NmuCI	GTSAC	2 cut(s)	328, 753
NspI	RCATGY	1 cut(s)	220
PciSI	GCTCTTC	1 cut(s)	384
PcsI	WCGNNNNNNNCGW	1 cut(s)	846
PctI	GAATGC	1 cut(s)	82
PfeI	GAWTC	1 cut(s)	245
PkrI	GCNGC	1 cut(s)	182
PleI	GAGTC	1 cut(s)	335
PpsI	GAGTC	1 cut(s)	335
PpuMI	RGGWCCY	1 cut(s)	190
Psp5II	RGGWCCY	1 cut(s)	190
Psp6I	CCWGG	3 cut(s)	133, 291, 480
PspFI	CCCAGC	1 cut(s)	169
PspGI	CCWGG	3 cut(s)	133, 291, 480
PspN4I	GGNNCC	2 cut(s)	102, 592
PspPI	GGNCC	1 cut(s)	190
PspPPI	RGGWCCY	1 cut(s)	190
PsrI	GAACNNNNNNTAC	2 cut(s)	121, 153
PvuII	CAGCTG	1 cut(s)	956
RsaI	GTAC	6 cut(s)	139, 419, 428, 672, 785, 906
RsaNI	GTAC	6 cut(s)	138, 418, 427, 671, 784, 905
SapI	GCTCTTC	1 cut(s)	384
SatI	GCNGC	1 cut(s)	181
Sau3AI	GATC	3 cut(s)	211, 721, 745
Sau96I	GGNCC	1 cut(s)	190
SchI	GAGTC	1 cut(s)	336
ScrFI	CCNGG	5 cut(s)	98, 135, 293, 482, 751
SduI	GDGCHC	2 cut(s)	595, 946
SfcI	CTRYAG	1 cut(s)	762
SinI	GGWCC	1 cut(s)	190
SmlI	CTYRAG	2 cut(s)	250, 343
SmoI	CTYRAG	2 cut(s)	250, 343
Sse9I	AATT	9 cut(s)	91, 117, 334, 471, 491, 715, 734, 795, 879
SsiI	CCGC	1 cut(s)	181
StyD4I	CCNGG	5 cut(s)	96, 133, 291, 480, 749
TaaI	ACNGT	3 cut(s)	431, 707, 966
TaiI	ACGT	1 cut(s)	843
TaqI	TCGA	2 cut(s)	158, 201
TasI	AATT	9 cut(s)	91, 117, 334, 471, 491, 715, 734, 795, 879
TatI	WGTACW	3 cut(s)	417, 426, 670
TauI	GCSGC	1 cut(s)	183
TfiI	GAWTC	1 cut(s)	245
TscAI	CASTG	2 cut(s)	37, 915
TseFI	GTSAC	2 cut(s)	328, 753
Tsp45I	GTSAC	2 cut(s)	328, 753
TspDTI	ATGAA	3 cut(s)	176, 336, 453
TspRI	CASTG	2 cut(s)	37, 915
Vha464I	CTTAAG	1 cut(s)	250
VpaK11BI	GGWCC	1 cut(s)	190
XapI	RAATTY	3 cut(s)	334, 471, 734
XceI	RCATGY	1 cut(s)	220

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