Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0005279

Physical Location & Seq

Genomic Coordinates Forward (+)

80764178 .. 80765761

Gene Structure 1584 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG578400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 624 bp

ATGGACGCCGTCGAAAGAGAGGAGGAGGAGGTTAACACCCTTAAGCAGCAGTTTCGTTTTCTGCCGGACAAGTACAAGGATTGCTATCTGGTATATATTCTTACTGAGAAGCGCCAATCTACAGCAATTGTTTTTGCTCGTTCACCAGATGTATGCAGATTGGCTTTAATGCTTCAATATCTTGGCATAAGGGCTATCCCAATTACTGGACATATGGAAGAGTCGCAAAGACTTCTTGCCTCAAGTATGTTCAAAGCTGGACAGTTTAATGTACTTATCTGCACGGATATGGCAATTAGAGATTTGGATATTCCATCAGTCGATATTATTATTAGTTATGACATCCCCTCAAATCCTCAGTACTATGTCCACCGAATAGGACGAACTGCTTGTGACGGACGATCTGGAGTTGCAATCTCTCTAGTAAATCAGTATGAATTGGAGTGGTATACGAAGATAGAGAAGCTTATTGGCAAAGAGTTACCTGAATTTCCTGCTCAAGAAGAGGAAGTCCTACAATTTCTTGAACCTGTCAGAGAAGCCAAAATATTGGCCGAATCAGTACAAAACAAGCGGAAGTGGAGACAAGAAAGAAAGGATGGTGAAGAGGATATTGAAAAGTAG

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

24.1

Weight (kDa)

5.1

Isoelectric Point (pI)

58.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C	PF00271	29 - 130	2.2e-20	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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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
AccI	GTMKAC	1 cut(s)	449
AciI	CCGC	1 cut(s)	574
AcoI	YGGCCR	1 cut(s)	552
AcsI	RAATTY	1 cut(s)	488
AcyI	GRCGYC	1 cut(s)	6
AfaI	GTAC	4 cut(s)	74, 273, 362, 564
AfiI	CCNNNNNNNGG	1 cut(s)	206
AflII	CTTAAG	1 cut(s)	41
AgsI	TTSAA	4 cut(s)	176, 253, 527, 617
AluBI	AGCT	2 cut(s)	257, 466
AluI	AGCT	2 cut(s)	257, 466
Alw26I	GTCTC	1 cut(s)	577
AoxI	GGCC	1 cut(s)	552
ApeKI	GCWGC	1 cut(s)	46
ApoI	RAATTY	1 cut(s)	488
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)	577
BfaI	CTAG	1 cut(s)	422
BfmI	CTRYAG	1 cut(s)	120
BfoI	RGCGCY	1 cut(s)	115
BfrI	CTTAAG	1 cut(s)	41
BisI	GCNGC	1 cut(s)	47
BlsI	GCNGC	1 cut(s)	48
BmcAI	AGTACT	1 cut(s)	362
BpmI	CTGGAG	1 cut(s)	426
BpuEI	CTTGAG	2 cut(s)	226, 483
BsaBI	GATNNNNATC	1 cut(s)	84
BsaHI	GRCGYC	1 cut(s)	6
Bsc4I	CCNNNNNNNGG	1 cut(s)	206
Bse1I	ACTGG	1 cut(s)	211
Bse8I	GATNNNNATC	1 cut(s)	84
BseGI	GGATG	2 cut(s)	342, 604
BseJI	GATNNNNATC	1 cut(s)	84
BseLI	CCNNNNNNNGG	1 cut(s)	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	1 cut(s)	554
BsiSI	CCGG	1 cut(s)	65
BslI	CCNNNNNNNGG	1 cut(s)	206
BsmAI	GTCTC	1 cut(s)	577
BsnI	GGCC	1 cut(s)	554
Bsp143I	GATC	1 cut(s)	401
BspACI	CCGC	1 cut(s)	574
BspANI	GGCC	1 cut(s)	554
BspCNI	CTCAG	2 cut(s)	97, 370
BspTI	CTTAAG	1 cut(s)	41
BsrI	ACTGG	1 cut(s)	211
BssMI	GATC	1 cut(s)	401
BssNAI	GTATAC	1 cut(s)	450
BssNI	GRCGYC	1 cut(s)	6
Bst1107I	GTATAC	1 cut(s)	450
Bst4CI	ACNGT	1 cut(s)	264
Bst6I	CTCTTC	3 cut(s)	213, 498, 600
BstACI	GRCGYC	1 cut(s)	6
BstAFI	CTTAAG	1 cut(s)	41
BstDEI	CTNAG	2 cut(s)	105, 357
BstF5I	GGATG	2 cut(s)	342, 604
BstH2I	RGCGCY	1 cut(s)	115
BstHHI	GCGC	1 cut(s)	114
BstKTI	GATC	1 cut(s)	404
BstMAI	GTCTC	1 cut(s)	577
BstMBI	GATC	1 cut(s)	401
BstSFI	CTRYAG	1 cut(s)	120
BstV1I	GCAGC	1 cut(s)	58
BstXI	CCANNNNNNTGG	1 cut(s)	550
BstZ17I	GTATAC	1 cut(s)	450
BsuRI	GGCC	1 cut(s)	554
BtsCI	GGATG	2 cut(s)	342, 604
CfoI	GCGC	1 cut(s)	114
CseI	GACGC	1 cut(s)	14
Csp6I	GTAC	4 cut(s)	73, 272, 361, 563
CviJI	RGCY	6 cut(s)	164, 194, 257, 466, 542, 554
CviKI_1	RGCY	6 cut(s)	164, 194, 257, 466, 542, 554
CviQI	GTAC	4 cut(s)	73, 272, 361, 563
DdeI	CTNAG	2 cut(s)	105, 357
DpnI	GATC	1 cut(s)	403
DpnII	GATC	1 cut(s)	401
EaeI	YGGCCR	1 cut(s)	552
Eam1104I	CTCTTC	3 cut(s)	213, 498, 600
EarI	CTCTTC	3 cut(s)	213, 498, 600
FauNDI	CATATG	1 cut(s)	213
FblI	GTMKAC	1 cut(s)	449
Fnu4HI	GCNGC	1 cut(s)	47
FokI	GGATG	2 cut(s)	329, 611
Fsp4HI	GCNGC	1 cut(s)	47
FspBI	CTAG	1 cut(s)	422
GlaI	GCGC	1 cut(s)	113
GluI	GCNGC	1 cut(s)	47
GsuI	CTGGAG	1 cut(s)	426
HaeII	RGCGCY	1 cut(s)	115
HaeIII	GGCC	1 cut(s)	554
HapII	CCGG	1 cut(s)	65
HgaI	GACGC	1 cut(s)	14
HhaI	GCGC	1 cut(s)	114
Hin1I	GRCGYC	1 cut(s)	6
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	4 cut(s)	34, 143, 370, 450
Hpy188I	TCNGA	1 cut(s)	536
Hpy188III	TCNNGA	3 cut(s)	405, 500, 524
Hpy8I	GTNNAC	4 cut(s)	34, 143, 370, 450
Hpy99I	CGWCG	1 cut(s)	14
HpyCH4III	ACNGT	1 cut(s)	264
HpyCH4V	TGCA	3 cut(s)	156, 282, 413
HpyF3I	CTNAG	2 cut(s)	105, 357
Hsp92I	GRCGYC	1 cut(s)	6
HspAI	GCGC	1 cut(s)	112
KspAI	GTTAAC	1 cut(s)	34
Kzo9I	GATC	1 cut(s)	401
LpnPI	CCDG	9 cut(s)	74, 78, 159, 192, 243, 390, 498, 507, 543
Lsp1109I	GCAGC	1 cut(s)	58
MaeI	CTAG	1 cut(s)	422
MaeIII	GTNAC	2 cut(s)	392, 480
MalI	GATC	1 cut(s)	403
MboI	GATC	1 cut(s)	401
MboII	GAAGA	4 cut(s)	230, 466, 515, 617
MfeI	CAATTG	1 cut(s)	126
MluCI	AATT	6 cut(s)	126, 201, 294, 437, 488, 518
MlyI	GAGTC	1 cut(s)	230
MnlI	CCTC	9 cut(s)	13, 16, 19, 22, 250, 358, 366, 499, 601
MseI	TTAA	4 cut(s)	33, 42, 167, 267
MslI	CAYNNNNRTG	1 cut(s)	287
MspCI	CTTAAG	1 cut(s)	41
MspI	CCGG	1 cut(s)	65
MunI	CAATTG	1 cut(s)	126
NdeI	CATATG	1 cut(s)	213
NdeII	GATC	1 cut(s)	401
NmuCI	GTSAC	1 cut(s)	392
PfeI	GAWTC	1 cut(s)	557
PflFI	GACNNNGTC	1 cut(s)	8
PflMI	CCANNNNNTGG	1 cut(s)	206
PkrI	GCNGC	1 cut(s)	48
PleI	GAGTC	1 cut(s)	229
PpsI	GAGTC	1 cut(s)	229
PsyI	GACNNNGTC	1 cut(s)	8
RsaI	GTAC	4 cut(s)	74, 273, 362, 564
RsaNI	GTAC	4 cut(s)	73, 272, 361, 563
RseI	CAYNNNNRTG	1 cut(s)	287
SaqAI	TTAA	4 cut(s)	33, 42, 167, 267
SatI	GCNGC	1 cut(s)	47
Sau3AI	GATC	1 cut(s)	401
ScaI	AGTACT	1 cut(s)	362
SchI	GAGTC	1 cut(s)	230
SetI	ASST	5 cut(s)	33, 259, 468, 487, 532
SfcI	CTRYAG	1 cut(s)	120
SmiMI	CAYNNNNRTG	1 cut(s)	287
SmlI	CTYRAG	3 cut(s)	41, 241, 498
SmoI	CTYRAG	3 cut(s)	41, 241, 498
Sse9I	AATT	6 cut(s)	126, 201, 294, 437, 488, 518
SsiI	CCGC	1 cut(s)	574
SspI	AATATT	1 cut(s)	549
SspMI	CTAG	1 cut(s)	422
TaaI	ACNGT	1 cut(s)	264
TaqI	TCGA	2 cut(s)	12, 321
TasI	AATT	6 cut(s)	126, 201, 294, 437, 488, 518
TatI	WGTACW	4 cut(s)	72, 271, 360, 562
TfiI	GAWTC	1 cut(s)	557
Tru1I	TTAA	4 cut(s)	33, 42, 167, 267
Tru9I	TTAA	4 cut(s)	33, 42, 167, 267
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
Tth111I	GACNNNGTC	1 cut(s)	8
Van91I	CCANNNNNTGG	1 cut(s)	206
Vha464I	CTTAAG	1 cut(s)	41
XapI	RAATTY	1 cut(s)	488
XmiI	GTMKAC	1 cut(s)	449
XspI	CTAG	1 cut(s)	422
ZrmI	AGTACT	1 cut(s)	362

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