Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0001045

Physical Location & Seq

Genomic Coordinates Forward (+)

65186654 .. 65193344

Gene Structure 6691 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG421900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGAACAATGAGAAACTGACTTGCTCGAGCTGCAGGGAGTTTGCACTTCAGATTGATCAGCAGTTCCAAGCTCTTGGGCCTGGCATTGGCGCCAAGTCTATAGCGCTTGTTGGAGGAGAGTGTGAGGTGCAACAATCTCCTGTTCTTGCAAAGCGGCCGCATATTATTGTTGCAATACCTGGACGCTTCCTTCATCATCTAACCAAGACAAGAGGATTCTCTCTAGGCACAATTAAATATTTGGTTTTAGATGAGGCAGACAGGTTGCTTGGTGAGGAGTTTCAGAAAACAACAAATGAAATTCTGAAGGTCATTCCTTATGGTGGTGAACGGAGAACATATTTATTTTCCACTACTATGACCAACAAGGTCAAGAAGGTGGCAAGGGCTGGTCTAAGGAACCCTGTGAAGGTTGCAAATTTTGAATACATTGACGAAGCAGAGGGCGTAGAAGAGGAGGAACCAAAAAAGGCTGCAGTTGACAGTAGTCCTACTGACAATGATAAATCAAATTTCTGGGAAGATTTGTTAAAGGACAGATATGAAGTGCATAAAGTTGAAGAATTAAACGCTTTAGGCAAAGGGAAGAGAAGTCGTAAGCAGACATTCTTGGTATCTATAGTTCGGAAACTGCTTGATAGAATGGCTAAAGTGTGGCCTTCTCTTTCTATGGTGATAAATATCGAAGGGGTAGATATGATGGTTGGGGTTCCTCTGAGGAGTGGCTGTCCTGCTCTTGATGATCTTTCAGTGGATTCCCATCCATTCAGTTCTTCTAGATGGTTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009987 GO:0010467 GO:0010501 GO:0016070 GO:0016072 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022613 GO:0031974 GO:0031981 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0070035 GO:0071704 GO:0071840 GO:0090304 GO:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

262

Amino Acids

29.33

Weight (kDa)

8.26

Isoelectric Point (pI)

48.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	8 - 126	4.9e-19	DEAD/DEAH box helicase
DUF1087	PF06465	151 - 205	1.3e-20	CHD subfamily II, DUF1087

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: OG0001045)

Species	Orthologous Gene IDs
pyrus_communis	pycom02g04540
rosa_chinensis	RchiOBHm_Chr1g0338921 RchiOBHm_Chr1g0342131 RchiOBHm_Chr2g0159881 RchiOBHm_Chr5g0002061 RchiOBHm_Chr5g0051771 RchiOBHm_Chr5g0076941 RchiOBHm_Chr6g0282081 RchiOBHm_Chr7g0198131
rosa_laevigata	RLG00000003496 RLG00000019204 RLG00000019210 RLG00000031093 RLG00000034339 RLG00000035955
rosa_multiflora	Rmu_co8265413.1_g000001 Rmu_sc0000569.1_g000024 Rmu_sc0000585.1_g000006 Rmu_sc0000780.1_g000015 Rmu_sc0001192.1_g000043 Rmu_sc0001700.1_g000048 Rmu_sc0003092.1_g000032 Rmu_sc0004502.1_g000020 Rmu_sc0004991.1_g000005 Rmu_sc0041726.1_g000001
rosa_roxburghii	Rroxscaffold_1G00033570 Rroxscaffold_1G00035950 Rroxscaffold_1G00047770 Rroxscaffold_2G00124770 Rroxscaffold_2G00143760 Rroxscaffold_3G00227140 Rroxscaffold_5G00341620
rosa_rugosa	Rorug01G0102800 Rorug02G0472100 Rorug03G0011600 Rorug04G0024700 Rorug05G0042700
rosa_samantha	Rh1AG421900 Rh2AG356700 Rh2BG577700 Rh2CG210300 Rh2DG229300 Rh2DG624300 Rh3CG229200 Rh4AG386800 Rh4CG238600 Rh4DG226600 Rh4DG393700 Rh5AG380700 Rh5BG360500 Rh5DG260600 Rh6AG053500 Rh6AG258300 Rh6BG316700 Rh6CG120500 Rh6CG260600 Rh6DG252700 Rh6DG497500 Rh7AG364300 Rh7CG383100
rosa_wichuraiana	Rw6G022360

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	89
AciI	CCGC	2 cut(s)	154, 158
AcoI	YGGCCR	1 cut(s)	155
AcsI	RAATTY	3 cut(s)	300, 418, 511
AcuI	CTGAAG	2 cut(s)	32, 326
AcyI	GRCGYC	1 cut(s)	90
AfeI	AGCGCT	1 cut(s)	105
AfiI	CCNNNNNNNGG	3 cut(s)	86, 323, 409
AgsI	TTSAA	2 cut(s)	425, 560
AjnI	CCWGG	2 cut(s)	79, 178
AluBI	AGCT	2 cut(s)	30, 71
AluI	AGCT	2 cut(s)	30, 71
Ama87I	CYCGRG	1 cut(s)	25
Aor51HI	AGCGCT	1 cut(s)	105
AoxI	GGCC	3 cut(s)	77, 155, 656
ApeKI	GCWGC	2 cut(s)	30, 473
ApoI	RAATTY	3 cut(s)	300, 418, 511
AspLEI	GCGC	2 cut(s)	92, 106
AspS9I	GGNCC	1 cut(s)	77
AsuHPI	GGTGA	3 cut(s)	284, 338, 685
AvaI	CYCGRG	1 cut(s)	25
BanI	GGYRCC	1 cut(s)	89
BbvI	GCAGC	2 cut(s)	17, 460
BccI	CCATC	3 cut(s)	694, 768, 774
BciT130I	CCWGG	2 cut(s)	81, 180
BclI	TGATCA	1 cut(s)	55
BfaI	CTAG	2 cut(s)	224, 777
BfmI	CTRYAG	4 cut(s)	31, 99, 474, 618
BfoI	RGCGCY	2 cut(s)	93, 107
BisI	GCNGC	4 cut(s)	31, 155, 158, 474
BlsI	GCNGC	4 cut(s)	32, 156, 159, 475
Bme1390I	CCNGG	2 cut(s)	81, 180
BmeT110I	CYCGRG	1 cut(s)	25
BmgT120I	GGNCC	1 cut(s)	77
BmiI	GGNNCC	4 cut(s)	91, 401, 462, 711
BmrFI	CCNGG	2 cut(s)	81, 180
BoxI	GACNNNNGTC	1 cut(s)	486
BsaBI	GATNNNNATC	2 cut(s)	680, 759
BsaHI	GRCGYC	1 cut(s)	90
BsaXI	ACNNNNNCTCC	2 cut(s)	712, 742
Bsc4I	CCNNNNNNNGG	3 cut(s)	86, 323, 409
Bse8I	GATNNNNATC	2 cut(s)	680, 759
BseBI	CCWGG	2 cut(s)	81, 180
BseGI	GGATG	1 cut(s)	760
BseJI	GATNNNNATC	2 cut(s)	680, 759
BseLI	CCNNNNNNNGG	3 cut(s)	86, 323, 409
BseMII	CTCAG	1 cut(s)	707
BseRI	GAGGAG	4 cut(s)	129, 290, 470, 733
BseX3I	CGGCCG	1 cut(s)	155
BseXI	GCAGC	2 cut(s)	17, 460
Bsh1285I	CGRYCG	1 cut(s)	158
BshFI	GGCC	3 cut(s)	79, 157, 658
BshNI	GGYRCC	1 cut(s)	89
BsiEI	CGRYCG	1 cut(s)	158
BsiHKCI	CYCGRG	1 cut(s)	25
BslI	CCNNNNNNNGG	3 cut(s)	86, 323, 409
BsnI	GGCC	3 cut(s)	79, 157, 658
BsoBI	CYCGRG	1 cut(s)	25
Bsp143I	GATC	2 cut(s)	55, 742
BspACI	CCGC	2 cut(s)	154, 158
BspANI	GGCC	3 cut(s)	79, 157, 658
BspCNI	CTCAG	1 cut(s)	708
BspLI	GGNNCC	4 cut(s)	91, 401, 462, 711
BspMAI	CTGCAG	2 cut(s)	35, 478
BspT107I	GGYRCC	1 cut(s)	89
BssMI	GATC	2 cut(s)	55, 742
BssNI	GRCGYC	1 cut(s)	90
Bst2UI	CCWGG	2 cut(s)	81, 180
Bst4CI	ACNGT	1 cut(s)	485
Bst6I	CTCTTC	2 cut(s)	447, 581
BstACI	GRCGYC	1 cut(s)	90
BstDEI	CTNAG	2 cut(s)	395, 716
BstF5I	GGATG	1 cut(s)	760
BstH2I	RGCGCY	2 cut(s)	93, 107
BstHHI	GCGC	2 cut(s)	92, 106
BstKTI	GATC	2 cut(s)	58, 745
BstMBI	GATC	2 cut(s)	55, 742
BstMCI	CGRYCG	1 cut(s)	158
BstMWI	GCNNNNNNNGC	1 cut(s)	30
BstNI	CCWGG	2 cut(s)	81, 180
BstPAI	GACNNNNGTC	1 cut(s)	486
BstSCI	CCNGG	2 cut(s)	79, 178
BstSFI	CTRYAG	4 cut(s)	31, 99, 474, 618
BstV1I	GCAGC	2 cut(s)	17, 460
BstXI	CCANNNNNNTGG	1 cut(s)	74
BstZI	CGGCCG	1 cut(s)	155
BsuRI	GGCC	3 cut(s)	79, 157, 658
BtsCI	GGATG	1 cut(s)	760
BtsIMutI	CAGTG	1 cut(s)	756
CciNI	GCGGCCGC	1 cut(s)	155
CfoI	GCGC	2 cut(s)	92, 106
Cfr13I	GGNCC	1 cut(s)	77
CseI	GACGC	1 cut(s)	192
CviJI	RGCY	9 cut(s)	30, 71, 79, 157, 389, 473, 647, 658, 726
CviKI_1	RGCY	9 cut(s)	30, 71, 79, 157, 389, 473, 647, 658, 726
DdeI	CTNAG	2 cut(s)	395, 716
DinI	GGCGCC	1 cut(s)	91
DpnI	GATC	2 cut(s)	57, 744
DpnII	GATC	2 cut(s)	55, 742
EaeI	YGGCCR	1 cut(s)	155
EagI	CGGCCG	1 cut(s)	155
Eam1104I	CTCTTC	2 cut(s)	447, 581
EarI	CTCTTC	2 cut(s)	447, 581
EclXI	CGGCCG	1 cut(s)	155
Eco47III	AGCGCT	1 cut(s)	105
Eco52I	CGGCCG	1 cut(s)	155
Eco57I	CTGAAG	2 cut(s)	32, 326
Eco88I	CYCGRG	1 cut(s)	25
EcoRII	CCWGG	2 cut(s)	79, 178
EgeI	GGCGCC	1 cut(s)	91
EheI	GGCGCC	1 cut(s)	91
FbaI	TGATCA	1 cut(s)	55
Fnu4HI	GCNGC	4 cut(s)	31, 155, 158, 474
FokI	GGATG	1 cut(s)	747
Fsp4HI	GCNGC	4 cut(s)	31, 155, 158, 474
FspBI	CTAG	2 cut(s)	224, 777
GlaI	GCGC	2 cut(s)	91, 105
GluI	GCNGC	4 cut(s)	31, 155, 158, 474
HaeII	RGCGCY	2 cut(s)	93, 107
HaeIII	GGCC	3 cut(s)	79, 157, 658
HgaI	GACGC	1 cut(s)	192
HhaI	GCGC	2 cut(s)	92, 106
Hin1I	GRCGYC	1 cut(s)	90
Hin6I	GCGC	2 cut(s)	90, 104
HinP1I	GCGC	2 cut(s)	90, 104
HincII	GTYRAC	1 cut(s)	481
HindII	GTYRAC	1 cut(s)	481
HinfI	GANTC	2 cut(s)	216, 755
HphI	GGTGA	3 cut(s)	284, 338, 685
Hpy166II	GTNNAC	2 cut(s)	329, 481
Hpy188I	TCNGA	5 cut(s)	51, 285, 306, 627, 717
Hpy188III	TCNNGA	3 cut(s)	373, 737, 777
Hpy8I	GTNNAC	2 cut(s)	329, 481
HpyAV	CCTTC	6 cut(s)	200, 301, 370, 403, 669, 680
HpyCH4III	ACNGT	1 cut(s)	485
HpyCH4V	TGCA	8 cut(s)	33, 44, 130, 149, 173, 416, 476, 550
HpyF10VI	GCNNNNNNNGC	1 cut(s)	30
HpyF3I	CTNAG	2 cut(s)	395, 716
Hsp92I	GRCGYC	1 cut(s)	90
HspAI	GCGC	2 cut(s)	90, 104
KasI	GGCGCC	1 cut(s)	89
Ksp22I	TGATCA	1 cut(s)	55
Kzo9I	GATC	2 cut(s)	55, 742
Lsp1109I	GCAGC	2 cut(s)	17, 460
MaeI	CTAG	2 cut(s)	224, 777
MalI	GATC	2 cut(s)	57, 744
MboI	GATC	2 cut(s)	55, 742
MboII	GAAGA	5 cut(s)	464, 533, 572, 598, 765
MluCI	AATT	5 cut(s)	231, 300, 418, 511, 563
Mly113I	GGCGCC	1 cut(s)	90
MmeI	TCCRAC	1 cut(s)	91
MseI	TTAA	3 cut(s)	234, 530, 566
MslI	CAYNNNNRTG	1 cut(s)	356
MspR9I	CCNGG	2 cut(s)	81, 180
MvaI	CCWGG	2 cut(s)	81, 180
MwoI	GCNNNNNNNGC	1 cut(s)	30
NarI	GGCGCC	1 cut(s)	90
NdeII	GATC	2 cut(s)	55, 742
NlaIV	GGNNCC	4 cut(s)	91, 401, 462, 711
NotI	GCGGCCGC	1 cut(s)	155
PaeR7I	CTCGAG	1 cut(s)	25
PfeI	GAWTC	2 cut(s)	216, 755
PkrI	GCNGC	4 cut(s)	32, 156, 159, 475
PluTI	GGCGCC	1 cut(s)	93
PshAI	GACNNNNGTC	1 cut(s)	486
Psp6I	CCWGG	2 cut(s)	79, 178
PspGI	CCWGG	2 cut(s)	79, 178
PspN4I	GGNNCC	4 cut(s)	91, 401, 462, 711
PspPI	GGNCC	1 cut(s)	77
PspXI	VCTCGAGB	1 cut(s)	25
PsrI	GAACNNNNNNTAC	2 cut(s)	606, 638
PstI	CTGCAG	2 cut(s)	35, 478
RseI	CAYNNNNRTG	1 cut(s)	356
SaqAI	TTAA	3 cut(s)	234, 530, 566
SatI	GCNGC	4 cut(s)	31, 155, 158, 474
Sau3AI	GATC	2 cut(s)	55, 742
Sau96I	GGNCC	1 cut(s)	77
ScrFI	CCNGG	2 cut(s)	81, 180
SetI	ASST	9 cut(s)	32, 73, 129, 181, 266, 312, 372, 381, 414
SfcI	CTRYAG	4 cut(s)	31, 99, 474, 618
SfoI	GGCGCC	1 cut(s)	91
Sfr274I	CTCGAG	1 cut(s)	25
SlaI	CTCGAG	1 cut(s)	25
SmiMI	CAYNNNNRTG	1 cut(s)	356
SmlI	CTYRAG	1 cut(s)	25
SmoI	CTYRAG	1 cut(s)	25
Sse9I	AATT	5 cut(s)	231, 300, 418, 511, 563
SsiI	CCGC	2 cut(s)	154, 158
SspDI	GGCGCC	1 cut(s)	89
SspI	AATATT	1 cut(s)	239
SspMI	CTAG	2 cut(s)	224, 777
StyD4I	CCNGG	2 cut(s)	79, 178
TaaI	ACNGT	1 cut(s)	485
TaqI	TCGA	2 cut(s)	26, 684
TasI	AATT	5 cut(s)	231, 300, 418, 511, 563
TauI	GCSGC	2 cut(s)	157, 160
TfiI	GAWTC	2 cut(s)	216, 755
Tru1I	TTAA	3 cut(s)	234, 530, 566
Tru9I	TTAA	3 cut(s)	234, 530, 566
TscAI	CASTG	1 cut(s)	756
TseI	GCWGC	2 cut(s)	30, 473
TspDTI	ATGAA	4 cut(s)	17, 182, 312, 558
TspGWI	ACGGA	1 cut(s)	346
TspRI	CASTG	1 cut(s)	756
XapI	RAATTY	3 cut(s)	300, 418, 511
XbaI	TCTAGA	1 cut(s)	776
XhoI	CTCGAG	1 cut(s)	25
XspI	CTAG	2 cut(s)	224, 777

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