Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0005279

Physical Location & Seq

Genomic Coordinates Forward (+)

83171402 .. 83173014

Gene Structure 1613 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG599900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 624 bp

ATGGCCGCCGTTGAAAGGGAGGAGGAGGAGGTTAACACCCTTCAGCAGCAGTTTCGTTTTCTGCCGGACAAGGACAAGGATTGCTATCTGGTATATATTCTCACTGAGAAGCGCCAATCTACAGCAATTGTTTTTGCTCGTTCACCAGATGTATGCAGATTGGCTTTAATGCTTCAATATCTTGGCATAAGGGCTATCCCAATTACTGGACATATGGGAGAGTCGCAAAGACTTCTTGCCTCAAGTATATTCAAAGCTGGACAGTTTAATGTACTTATCTGCACGGATGTGGCAATTAGAGATTTGGATATTCCATCAGTCGATATTATTATTAATTATGACATCCCCTCAAATCCTCAGTATTACGTCCACCGAATAGGACAAAATGCTTGTGACGGACGATCTAGAGTTGCAATCTCTCTAGTAAATCAGTATGAATTGGAGTGGTATATAAAGATAGAGAAGCTTATTGGCAAAGAGTTACCTCAATTTCCTGCTCAAGAAAAGGAAGTCCTACAATTTCTTGAACCTGTCAGAGAAGCCAAAATATTGGCCGAATCAAAAACAAGCGGAAGTGGAGACAAGAAAGAAAGGATCGATGGTGAAGAGCATATTGAAAAGTAG

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

207

Amino Acids

23.67

Weight (kDa)

5.25

Isoelectric Point (pI)

51.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C	PF00271	29 - 127	6.8e-19	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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Image

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Publication-ready

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Orthologous Genes (Group: OG0005279)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G60990
fragaria_vesca	FvH4_3g15190 FvH4_3g15190 FvH4_3g15190
malus_domestica	MD10G1206500.v1.1
prunus_persica	Prupe.4G135800_v2.0.a1
pyrus_communis	pycom10g17630
rosa_chinensis	RchiOBHm_Chr2g0164771 RchiOBHm_Chr5g0025631
rosa_laevigata	RLG00000021484 RLG00000021488 RLG00000031602 RLG00000032853
rosa_multiflora	Rmu_sc0002137.1_g000001
rosa_roxburghii	Rroxscaffold_1G00053540 Rroxscaffold_1G00054150 Rroxscaffold_2G00083670 Rroxscaffold_2G00086310
rosa_rugosa	Rorug02G0510100 Rorug02G0529200 Rorug05G0087300
rosa_samantha	Rh2AG578400 Rh2BG589500 Rh2CG560100 Rh2DG599900 Rh5AG179100 Rh5BG178200 Rh5DG177400
rosa_wichuraiana	Rw5G016260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	206
AciI	CCGC	2 cut(s)	6, 570
AclWI	GGATC	1 cut(s)	602
AcoI	YGGCCR	2 cut(s)	3, 552
AcuI	CTGAAG	1 cut(s)	26
AfaI	GTAC	1 cut(s)	273
AfiI	CCNNNNNNNGG	2 cut(s)	15, 206
AgsI	TTSAA	5 cut(s)	14, 176, 253, 527, 617
AleI	CACNNNNGTG	1 cut(s)	287
AluBI	AGCT	2 cut(s)	257, 466
AluI	AGCT	2 cut(s)	257, 466
Alw26I	GTCTC	1 cut(s)	573
AlwI	GGATC	1 cut(s)	602
AoxI	GGCC	2 cut(s)	3, 552
ApeKI	GCWGC	1 cut(s)	46
AseI	ATTAAT	1 cut(s)	333
AspLEI	GCGC	1 cut(s)	114
AsuHPI	GGTGA	2 cut(s)	135, 614
BbvI	GCAGC	1 cut(s)	58
BccI	CCATC	2 cut(s)	322, 593
BcgI	CGANNNNNNTGC	2 cut(s)	35, 69
BcoDI	GTCTC	1 cut(s)	573
BfaI	CTAG	2 cut(s)	405, 422
BfmI	CTRYAG	1 cut(s)	120
BfoI	RGCGCY	1 cut(s)	115
BisI	GCNGC	2 cut(s)	6, 47
BlsI	GCNGC	2 cut(s)	7, 48
BpuEI	CTTGAG	2 cut(s)	226, 483
Bsa29I	ATCGAT	1 cut(s)	597
BsaBI	GATNNNNATC	1 cut(s)	84
Bsc4I	CCNNNNNNNGG	2 cut(s)	15, 206
Bse1I	ACTGG	1 cut(s)	211
Bse8I	GATNNNNATC	1 cut(s)	84
BseCI	ATCGAT	1 cut(s)	597
BseGI	GGATG	2 cut(s)	292, 342
BseJI	GATNNNNATC	1 cut(s)	84
BseLI	CCNNNNNNNGG	2 cut(s)	15, 206
BseMII	CTCAG	2 cut(s)	96, 371
BseNI	ACTGG	1 cut(s)	211
BseRI	GAGGAG	3 cut(s)	35, 38, 41
BseXI	GCAGC	1 cut(s)	58
BsgI	GTGCAG	1 cut(s)	265
BshFI	GGCC	2 cut(s)	5, 554
BshVI	ATCGAT	1 cut(s)	597
BsiSI	CCGG	1 cut(s)	65
BslI	CCNNNNNNNGG	2 cut(s)	15, 206
BsmAI	GTCTC	1 cut(s)	573
BsnI	GGCC	2 cut(s)	5, 554
Bsp143I	GATC	2 cut(s)	401, 594
BspACI	CCGC	2 cut(s)	6, 570
BspANI	GGCC	2 cut(s)	5, 554
BspCNI	CTCAG	2 cut(s)	97, 370
BspDI	ATCGAT	1 cut(s)	597
BspPI	GGATC	1 cut(s)	602
BspQI	GCTCTTC	1 cut(s)	600
BsrI	ACTGG	1 cut(s)	211
BssMI	GATC	2 cut(s)	401, 594
Bst4CI	ACNGT	1 cut(s)	264
Bst6I	CTCTTC	1 cut(s)	600
BstDEI	CTNAG	2 cut(s)	105, 357
BstF5I	GGATG	2 cut(s)	292, 342
BstH2I	RGCGCY	1 cut(s)	115
BstHHI	GCGC	1 cut(s)	114
BstKTI	GATC	2 cut(s)	404, 597
BstMAI	GTCTC	1 cut(s)	573
BstMBI	GATC	2 cut(s)	401, 594
BstSFI	CTRYAG	1 cut(s)	120
BstV1I	GCAGC	1 cut(s)	58
BstXI	CCANNNNNNTGG	1 cut(s)	550
Bsu15I	ATCGAT	1 cut(s)	597
BsuRI	GGCC	2 cut(s)	5, 554
BsuTUI	ATCGAT	1 cut(s)	597
BtsCI	GGATG	2 cut(s)	292, 342
BtsIMutI	CAGTG	1 cut(s)	102
CfoI	GCGC	1 cut(s)	114
ClaI	ATCGAT	1 cut(s)	597
Csp6I	GTAC	1 cut(s)	272
CviJI	RGCY	7 cut(s)	5, 164, 194, 257, 466, 542, 554
CviKI_1	RGCY	7 cut(s)	5, 164, 194, 257, 466, 542, 554
CviQI	GTAC	1 cut(s)	272
DdeI	CTNAG	2 cut(s)	105, 357
DpnI	GATC	2 cut(s)	403, 596
DpnII	GATC	2 cut(s)	401, 594
EaeI	YGGCCR	2 cut(s)	3, 552
Eam1104I	CTCTTC	1 cut(s)	600
EarI	CTCTTC	1 cut(s)	600
Eco57I	CTGAAG	1 cut(s)	26
FauNDI	CATATG	1 cut(s)	213
Fnu4HI	GCNGC	2 cut(s)	6, 47
FokI	GGATG	2 cut(s)	299, 329
Fsp4HI	GCNGC	2 cut(s)	6, 47
FspBI	CTAG	2 cut(s)	405, 422
GlaI	GCGC	1 cut(s)	113
GluI	GCNGC	2 cut(s)	6, 47
HaeII	RGCGCY	1 cut(s)	115
HaeIII	GGCC	2 cut(s)	5, 554
HapII	CCGG	1 cut(s)	65
HhaI	GCGC	1 cut(s)	114
Hin6I	GCGC	1 cut(s)	112
HinP1I	GCGC	1 cut(s)	112
HincII	GTYRAC	1 cut(s)	34
HindII	GTYRAC	1 cut(s)	34
HindIII	AAGCTT	1 cut(s)	464
HinfI	GANTC	2 cut(s)	221, 557
HpaI	GTTAAC	1 cut(s)	34
HpaII	CCGG	1 cut(s)	65
HphI	GGTGA	2 cut(s)	135, 614
Hpy166II	GTNNAC	3 cut(s)	34, 143, 370
Hpy188I	TCNGA	1 cut(s)	536
Hpy188III	TCNNGA	3 cut(s)	405, 500, 524
Hpy8I	GTNNAC	3 cut(s)	34, 143, 370
HpyAV	CCTTC	1 cut(s)	50
HpyCH4III	ACNGT	1 cut(s)	264
HpyCH4IV	ACGT	1 cut(s)	366
HpyCH4V	TGCA	3 cut(s)	156, 282, 413
HpyF3I	CTNAG	2 cut(s)	105, 357
HpySE526I	ACGT	1 cut(s)	366
HspAI	GCGC	1 cut(s)	112
KspAI	GTTAAC	1 cut(s)	34
Kzo9I	GATC	2 cut(s)	401, 594
LguI	GCTCTTC	1 cut(s)	600
LpnPI	CCDG	7 cut(s)	74, 78, 159, 192, 243, 507, 543
Lsp1109I	GCAGC	1 cut(s)	58
MaeI	CTAG	2 cut(s)	405, 422
MaeII	ACGT	1 cut(s)	366
MaeIII	GTNAC	2 cut(s)	392, 480
MalI	GATC	2 cut(s)	403, 596
MboI	GATC	2 cut(s)	401, 594
MboII	GAAGA	1 cut(s)	617
MfeI	CAATTG	1 cut(s)	126
MluCI	AATT	7 cut(s)	126, 201, 294, 334, 437, 488, 518
MlyI	GAGTC	1 cut(s)	230
MnlI	CCTC	8 cut(s)	13, 16, 19, 22, 250, 358, 366, 495
MseI	TTAA	4 cut(s)	33, 167, 267, 333
MslI	CAYNNNNRTG	1 cut(s)	287
MspI	CCGG	1 cut(s)	65
MunI	CAATTG	1 cut(s)	126
NdeI	CATATG	1 cut(s)	213
NdeII	GATC	2 cut(s)	401, 594
NmuCI	GTSAC	1 cut(s)	392
OliI	CACNNNNGTG	1 cut(s)	287
PciSI	GCTCTTC	1 cut(s)	600
PfeI	GAWTC	1 cut(s)	557
PflMI	CCANNNNNTGG	1 cut(s)	206
PkrI	GCNGC	2 cut(s)	7, 48
PleI	GAGTC	1 cut(s)	229
PpsI	GAGTC	1 cut(s)	229
PshBI	ATTAAT	1 cut(s)	333
RsaI	GTAC	1 cut(s)	273
RsaNI	GTAC	1 cut(s)	272
RseI	CAYNNNNRTG	1 cut(s)	287
SapI	GCTCTTC	1 cut(s)	600
SaqAI	TTAA	4 cut(s)	33, 167, 267, 333
SatI	GCNGC	2 cut(s)	6, 47
Sau3AI	GATC	2 cut(s)	401, 594
SchI	GAGTC	1 cut(s)	230
SetI	ASST	6 cut(s)	33, 259, 369, 468, 487, 532
SfcI	CTRYAG	1 cut(s)	120
SmiMI	CAYNNNNRTG	1 cut(s)	287
SmlI	CTYRAG	2 cut(s)	241, 498
SmoI	CTYRAG	2 cut(s)	241, 498
Sse9I	AATT	7 cut(s)	126, 201, 294, 334, 437, 488, 518
SsiI	CCGC	2 cut(s)	6, 570
SspI	AATATT	1 cut(s)	549
SspMI	CTAG	2 cut(s)	405, 422
TaaI	ACNGT	1 cut(s)	264
TaiI	ACGT	1 cut(s)	369
TaqI	TCGA	2 cut(s)	321, 597
TasI	AATT	7 cut(s)	126, 201, 294, 334, 437, 488, 518
TatI	WGTACW	1 cut(s)	271
TauI	GCSGC	1 cut(s)	8
TfiI	GAWTC	1 cut(s)	557
Tru1I	TTAA	4 cut(s)	33, 167, 267, 333
Tru9I	TTAA	4 cut(s)	33, 167, 267, 333
TscAI	CASTG	1 cut(s)	109
TseFI	GTSAC	1 cut(s)	392
TseI	GCWGC	1 cut(s)	46
Tsp45I	GTSAC	1 cut(s)	392
TspDTI	ATGAA	1 cut(s)	450
TspGWI	ACGGA	2 cut(s)	299, 411
TspRI	CASTG	1 cut(s)	109
Van91I	CCANNNNNTGG	1 cut(s)	206
VspI	ATTAAT	1 cut(s)	333
XbaI	TCTAGA	1 cut(s)	404
XspI	CTAG	2 cut(s)	405, 422

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