Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0000557

Physical Location & Seq

Genomic Coordinates Reverse (-)

44787118 .. 44788001

Gene Structure 884 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG340200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 336 bp

ATGTTCAATGGCGTTTTCAAGGACAGAAAGGTTGAAATTGACATCGATAGCTTTGTGAGTTCATTTCGGCCTGATATTATGGAGGCTACATATGCTTGTGCAAAAGGGTCAAAATTTTACAAGATAATGTCAGTTACAGGGGTTTTTGAGGGTAGCTTAATCAGGGCAATTGGGAGATTAGAGGAAGTTCTTCAGCAACTTATACACGCAGCCAATTCTATTGGAGAAATTGATCTTTTGAGGAGGGCTGTTTCAAAAATTAAGAGAGACATTGTCTTTGCAGCTTCCCTAGTAATTTTTGGCTGGAACGTTTTTGCCATCGTTTTTAGCTACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000460 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006364 GO:0006396 GO:0006401 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009056 GO:0009057 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0019439 GO:0022613 GO:0031123 GO:0031125 GO:0031974 GO:0031981 GO:0034470 GO:0034641 GO:0034655 GO:0034660 GO:0042254 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043628 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046700 GO:0070013 GO:0070035 GO:0071704 GO:0071840 GO:0090304 GO:0140098 GO:1901360 GO:1901361 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

DEAD DSHCT Helicase_C rRNA_proc-arch

Protein Analysis

111

Amino Acids

12.49

Weight (kDa)

8.82

Isoelectric Point (pI)

40.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DSHCT	PF08148	16 - 94	3.8e-19	DSHCT (NUC185) domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0000557)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G10320 AT1G10320
fragaria_vesca	FvH4_1g01270 FvH4_5g28020
malus_domestica	MD05G1262900.v1.1 MD05G1263000.v1.1 MD15G1442200.v1.1 MD15G1442300.v1.1
prunus_persica	Prupe.1G585000_v2.0.a1
pyrus_communis	pycom05g24740 pycom15g39000
rosa_chinensis	RchiOBHm_Chr1g0376021 RchiOBHm_Chr2g0152801 RchiOBHm_Chr6g0272511 RchiOBHm_Chr6g0272531 RchiOBHm_Chr6g0289931 RchiOBHm_Chr6g0289941 RchiOBHm_Chr6g0302241 RchiOBHm_Chr7g0221381 RchiOBHm_Chr7g0221391 RchiOBHm_Chr7g0221411
rosa_laevigata	RLG00000000942 RLG00000002158 RLG00000013669 RLG00000013670
rosa_multiflora	Rmu_co8352637.1_g000001 Rmu_co8463189.1_g000001 Rmu_sc0000092.1_g000005 Rmu_sc0001575.1_g000019 Rmu_sc0001579.1_g000007 Rmu_sc0002847.1_g000017 Rmu_sc0009283.1_g000001 Rmu_sc0018146.1_g000002 Rmu_sc0026927.1_g000002 Rmu_sc0026927.1_g000003 Rmu_sc0031601.1_g000001
rosa_roxburghii	Rroxscaffold_3G00238370 Rroxscaffold_5G00353980 Rroxscaffold_6G00399580 Rroxscaffold_7G00181850 Rroxscaffold_7G00196190 Rroxscaffold_7G00212980
rosa_rugosa	Rorug02G0202700 Rorug06G0053300 Rorug06G0073400 Rorug06G0208900 Rorug07G0202300 Rorug07G0202300 Rorug07G0202300
rosa_samantha	Rh1AG059200 Rh1AG066100 Rh1AG285800 Rh3AG222700 Rh3DG354600 Rh5BG508200 Rh5BG539300 Rh5BG541200 Rh5CG264600 Rh5CG531900 Rh5CG562800 Rh5CG563900 Rh5DG285300 Rh6AG094100 Rh6AG186000 Rh6AG186100 Rh6AG254700 Rh6BG189200 Rh6BG258000 Rh6CG186900 Rh6CG187000 Rh6DG178300 Rh6DG178700 Rh6DG349500 Rh7AG341800 Rh7AG341900 Rh7AG458600 Rh7BG332500 Rh7CG359600 Rh7DG340200 Rh7DG340300
rosa_wichuraiana	Rw2G036370 Rw6G016030 Rw7G029050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclI	AACGTT	1 cut(s)	309
AcsI	RAATTY	1 cut(s)	113
AcuI	CTGAAG	1 cut(s)	176
AgsI	TTSAA	4 cut(s)	7, 19, 35, 255
AluBI	AGCT	4 cut(s)	51, 156, 284, 330
AluI	AGCT	4 cut(s)	51, 156, 284, 330
Alw26I	GTCTC	1 cut(s)	261
AoxI	GGCC	1 cut(s)	68
ApeKI	GCWGC	2 cut(s)	209, 281
ApoI	RAATTY	1 cut(s)	113
ArsI	GACNNNNNNTTYG	2 cut(s)	260, 292
Asp700I	GAANNNNTTC	1 cut(s)	189
BbvI	GCAGC	2 cut(s)	221, 293
BccI	CCATC	1 cut(s)	326
BcoDI	GTCTC	1 cut(s)	261
BfaI	CTAG	2 cut(s)	290, 334
BisI	GCNGC	2 cut(s)	210, 282
BlsI	GCNGC	2 cut(s)	211, 283
Bsa29I	ATCGAT	1 cut(s)	45
BseCI	ATCGAT	1 cut(s)	45
BseRI	GAGGAG	1 cut(s)	256
BseXI	GCAGC	2 cut(s)	221, 293
BshFI	GGCC	1 cut(s)	70
BshVI	ATCGAT	1 cut(s)	45
BsmAI	GTCTC	1 cut(s)	261
BsnI	GGCC	1 cut(s)	70
Bsp143I	GATC	1 cut(s)	232
BspANI	GGCC	1 cut(s)	70
BspDI	ATCGAT	1 cut(s)	45
BssMI	GATC	1 cut(s)	232
BstKTI	GATC	1 cut(s)	235
BstMAI	GTCTC	1 cut(s)	261
BstMBI	GATC	1 cut(s)	232
BstMWI	GCNNNNNNNGC	1 cut(s)	92
BstV1I	GCAGC	2 cut(s)	221, 293
Bsu15I	ATCGAT	1 cut(s)	45
BsuRI	GGCC	1 cut(s)	70
BsuTUI	ATCGAT	1 cut(s)	45
ClaI	ATCGAT	1 cut(s)	45
CviJI	RGCY	9 cut(s)	51, 70, 86, 156, 212, 248, 284, 303, 330
CviKI_1	RGCY	9 cut(s)	51, 70, 86, 156, 212, 248, 284, 303, 330
DpnI	GATC	1 cut(s)	234
DpnII	GATC	1 cut(s)	232
Eco57I	CTGAAG	1 cut(s)	176
FaiI	YATR	4 cut(s)	80, 91, 93, 203
FauNDI	CATATG	1 cut(s)	91
Fnu4HI	GCNGC	2 cut(s)	210, 282
Fsp4HI	GCNGC	2 cut(s)	210, 282
FspBI	CTAG	2 cut(s)	290, 334
GluI	GCNGC	2 cut(s)	210, 282
HaeIII	GGCC	1 cut(s)	70
HpyCH4IV	ACGT	1 cut(s)	309
HpyCH4V	TGCA	2 cut(s)	101, 281
HpyF10VI	GCNNNNNNNGC	1 cut(s)	92
HpySE526I	ACGT	1 cut(s)	309
Kzo9I	GATC	1 cut(s)	232
LpnPI	CCDG	4 cut(s)	84, 123, 148, 289
Lsp1109I	GCAGC	2 cut(s)	221, 293
MaeI	CTAG	2 cut(s)	290, 334
MaeII	ACGT	1 cut(s)	309
MaeIII	GTNAC	1 cut(s)	133
MalI	GATC	1 cut(s)	234
MboI	GATC	1 cut(s)	232
MboII	GAAGA	1 cut(s)	182
MfeI	CAATTG	1 cut(s)	168
MluCI	AATT	7 cut(s)	36, 113, 168, 214, 228, 258, 294
MnlI	CCTC	5 cut(s)	76, 142, 175, 234, 237
MroXI	GAANNNNTTC	1 cut(s)	189
MseI	TTAA	2 cut(s)	158, 261
MunI	CAATTG	1 cut(s)	168
MwoI	GCNNNNNNNGC	1 cut(s)	92
NdeI	CATATG	1 cut(s)	91
NdeII	GATC	1 cut(s)	232
PdmI	GAANNNNTTC	1 cut(s)	189
PflFI	GACNNNGTC	1 cut(s)	272
PkrI	GCNGC	2 cut(s)	211, 283
Psp1406I	AACGTT	1 cut(s)	309
PsyI	GACNNNGTC	1 cut(s)	272
SaqAI	TTAA	2 cut(s)	158, 261
SatI	GCNGC	2 cut(s)	210, 282
Sau3AI	GATC	1 cut(s)	232
SetI	ASST	6 cut(s)	33, 53, 158, 286, 312, 332
SgeI	CNNG	9 cut(s)	31, 83, 108, 133, 150, 175, 218, 302, 316
Sse9I	AATT	7 cut(s)	36, 113, 168, 214, 228, 258, 294
SspMI	CTAG	2 cut(s)	290, 334
TaiI	ACGT	1 cut(s)	312
TaqI	TCGA	1 cut(s)	45
TasI	AATT	7 cut(s)	36, 113, 168, 214, 228, 258, 294
Tru1I	TTAA	2 cut(s)	158, 261
Tru9I	TTAA	2 cut(s)	158, 261
TseI	GCWGC	2 cut(s)	209, 281
TspDTI	ATGAA	1 cut(s)	51
Tth111I	GACNNNGTC	1 cut(s)	272
XapI	RAATTY	1 cut(s)	113
XmnI	GAANNNNTTC	1 cut(s)	189
XspI	CTAG	2 cut(s)	290, 334

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