Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001333

Physical Location & Seq

Genomic Coordinates Reverse (-)

3735248 .. 3735559

Gene Structure 312 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG046700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 312 bp

ATGTGTCTGAAGTATGCCGAGCCAGAGAAGAGCTTGGCTGAAATTGATCGTGCTCGGAGAGTATATGTATATGGATCACAGTTTTCACGTCCACAATATGATGCGGATTTCTGGAACAAATGGCTCGAGTTTGAGGTGCAATACGGAAATGAGGATACTTGCCGAGATATGCTTCGAATCAAACGGAGTGTATCTGCAAGCTATAGCCAGACGGACTCTGTTCTACCTGAGCATATGATGCAAAAGGATCAGAGGTTGAGCATTGATGGGGAGATAAAAGTCAGTGCTAGTTATCATGAAGACATGCATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000349 GO:0000375 GO:0000377 GO:0000393 GO:0000398 GO:0000974 GO:0001701 GO:0001824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0006139 GO:0006259 GO:0006281 GO:0006283 GO:0006289 GO:0006351 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009058 GO:0009059 GO:0009790 GO:0009792 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0018130 GO:0019438 GO:0022607 GO:0022613 GO:0022618 GO:0032501 GO:0032502 GO:0032774 GO:0032991 GO:0033554 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0043009 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048856 GO:0050896 GO:0051716 GO:0065003 GO:0071007 GO:0071010 GO:0071012 GO:0071013 GO:0071014 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

Suf

Protein Analysis

103

Amino Acids

12.24

Weight (kDa)

5.32

Isoelectric Point (pI)

52.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HAT_Syf1_CNRKL1_C	PF23231	1 - 89	4.1e-35	Pre-mRNA-splicing factor Syf1/CRNKL1 C-terminal HAT repeat

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: OG0001333)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G28740
fragaria_vesca	FvH4_3g03910 FvH4_3g04150 FvH4_3g04150 FvH4_3g04150 FvH4_3g04150
malus_domestica	MD05G1324400.v1.1 MD10G1302200.v1.1
prunus_persica	Prupe.5G013200_v2.0.a1
pyrus_communis	pycom05g29860 pycom10g25470
rosa_chinensis	RchiOBHm_Chr5g0006181 RchiOBHm_Chr5g0006191 RchiOBHm_Chr5g0006201 RchiOBHm_Chr5g0006601 RchiOBHm_Chr7g0193971
rosa_laevigata	RLG00000004227 RLG00000031375 RLG00000031376 RLG00000031403
rosa_multiflora	Rmu_co7988368.1_g000001 Rmu_co8257165.1_g000001 Rmu_co8304153.1_g000001 Rmu_co8327759.1_g000001 Rmu_sc0001972.1_g000002 Rmu_sc0002389.1_g000006 Rmu_sc0004331.1_g000002 Rmu_sc0005583.1_g000001 Rmu_sc0009371.1_g000007 Rmu_sc0011154.1_g000005 Rmu_sc0024345.1_g000002 Rmu_sc0032392.1_g000001 Rmu_sc0032393.1_g000001
rosa_roxburghii	Rroxscaffold_1G00069420 Rroxscaffold_1G00069440 Rroxscaffold_1G00069800 Rroxscaffold_2G00122720 Rroxscaffold_3G00261670
rosa_rugosa	Rorug04G0422900
rosa_samantha	Rh5AG050200 Rh5BG046700 Rh5BG046800 Rh5BG049400 Rh5CG055400 Rh5CG055600 Rh5CG057800 Rh5DG046500 Rh5DG048800 Rh7AG139900 Rh7AG140000 Rh7DG141300
rosa_wichuraiana	Rw5G004790 Rw5G005020 Rw7G011940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	104
AclWI	GGATC	2 cut(s)	82, 255
AcuI	CTGAAG	1 cut(s)	29
AjiI	CACGTC	1 cut(s)	89
AluBI	AGCT	2 cut(s)	33, 201
AluI	AGCT	2 cut(s)	33, 201
Alw21I	GWGCWC	1 cut(s)	55
AlwI	GGATC	2 cut(s)	82, 255
Ama87I	CYCGRG	1 cut(s)	125
AsuII	TTCGAA	1 cut(s)	175
AvaI	CYCGRG	1 cut(s)	125
BbsI	GAAGAC	1 cut(s)	306
Bbv12I	GWGCWC	1 cut(s)	55
BccI	CCATC	1 cut(s)	260
BciVI	GTATCC	1 cut(s)	148
BfaI	CTAG	1 cut(s)	288
BfmI	CTRYAG	1 cut(s)	202
BfuI	GTATCC	1 cut(s)	148
BmeT110I	CYCGRG	1 cut(s)	125
BmgBI	CACGTC	1 cut(s)	89
BmsI	GCATC	2 cut(s)	91, 228
BpiI	GAAGAC	1 cut(s)	306
Bpu10I	CCTNAGC	1 cut(s)	228
Bpu14I	TTCGAA	1 cut(s)	175
BseMII	CTCAG	1 cut(s)	219
BsiHKAI	GWGCWC	1 cut(s)	55
BsiHKCI	CYCGRG	1 cut(s)	125
BsoBI	CYCGRG	1 cut(s)	125
Bsp119I	TTCGAA	1 cut(s)	175
Bsp1286I	GDGCHC	1 cut(s)	55
Bsp143I	GATC	3 cut(s)	46, 74, 247
BspACI	CCGC	1 cut(s)	104
BspCNI	CTCAG	1 cut(s)	220
BspHI	TCATGA	1 cut(s)	295
BspPI	GGATC	2 cut(s)	82, 255
BspQI	GCTCTTC	1 cut(s)	23
BspT104I	TTCGAA	1 cut(s)	175
BssMI	GATC	3 cut(s)	46, 74, 247
Bst4CI	ACNGT	1 cut(s)	81
Bst6I	CTCTTC	1 cut(s)	23
BstAPI	GCANNNNNTGC	1 cut(s)	238
BstBI	TTCGAA	1 cut(s)	175
BstC8I	GCNNGC	1 cut(s)	199
BstDEI	CTNAG	1 cut(s)	228
BstKTI	GATC	3 cut(s)	49, 77, 250
BstMBI	GATC	3 cut(s)	46, 74, 247
BstMWI	GCNNNNNNNGC	1 cut(s)	238
BstNSI	RCATGY	1 cut(s)	307
BstSFI	CTRYAG	1 cut(s)	202
BstV2I	GAAGAC	1 cut(s)	306
BsuI	GTATCC	1 cut(s)	148
BtrI	CACGTC	1 cut(s)	89
BtsIMutI	CAGTG	1 cut(s)	289
Cac8I	GCNNGC	1 cut(s)	199
CciI	TCATGA	1 cut(s)	295
CviAII	CATG	2 cut(s)	296, 304
CviJI	RGCY	6 cut(s)	22, 33, 38, 124, 201, 207
CviKI_1	RGCY	6 cut(s)	22, 33, 38, 124, 201, 207
DdeI	CTNAG	1 cut(s)	228
DpnI	GATC	3 cut(s)	48, 76, 249
DpnII	GATC	3 cut(s)	46, 74, 247
Eam1104I	CTCTTC	1 cut(s)	23
EarI	CTCTTC	1 cut(s)	23
Eco57I	CTGAAG	1 cut(s)	29
Eco88I	CYCGRG	1 cut(s)	125
EcoT22I	ATGCAT	1 cut(s)	309
FaeI	CATG	2 cut(s)	299, 307
FatI	CATG	2 cut(s)	295, 303
FauNDI	CATATG	1 cut(s)	234
FspBI	CTAG	1 cut(s)	288
Hin1II	CATG	2 cut(s)	299, 307
HinfI	GANTC	2 cut(s)	177, 215
Hpy166II	GTNNAC	1 cut(s)	92
Hpy188I	TCNGA	3 cut(s)	9, 57, 252
Hpy188III	TCNNGA	2 cut(s)	112, 296
Hpy8I	GTNNAC	1 cut(s)	92
HpyCH4III	ACNGT	1 cut(s)	81
HpyCH4IV	ACGT	1 cut(s)	88
HpyCH4V	TGCA	4 cut(s)	139, 197, 241, 307
HpyF10VI	GCNNNNNNNGC	1 cut(s)	238
HpyF3I	CTNAG	1 cut(s)	228
HpySE526I	ACGT	1 cut(s)	88
Hsp92II	CATG	2 cut(s)	299, 307
Kzo9I	GATC	3 cut(s)	46, 74, 247
LguI	GCTCTTC	1 cut(s)	23
LpnPI	CCDG	4 cut(s)	36, 97, 221, 240
LweI	GCATC	2 cut(s)	91, 228
MaeI	CTAG	1 cut(s)	288
MaeII	ACGT	1 cut(s)	88
MalI	GATC	3 cut(s)	48, 76, 249
MboI	GATC	3 cut(s)	46, 74, 247
MboII	GAAGA	2 cut(s)	40, 311
MhlI	GDGCHC	1 cut(s)	55
MluCI	AATT	1 cut(s)	42
MlyI	GAGTC	1 cut(s)	209
MnlI	CCTC	3 cut(s)	127, 145, 246
Mph1103I	ATGCAT	1 cut(s)	309
MwoI	GCNNNNNNNGC	1 cut(s)	238
NdeI	CATATG	1 cut(s)	234
NdeII	GATC	3 cut(s)	46, 74, 247
NlaIII	CATG	2 cut(s)	299, 307
NmeAIII	GCCGAG	2 cut(s)	43, 188
NsiI	ATGCAT	1 cut(s)	309
NspI	RCATGY	1 cut(s)	307
NspV	TTCGAA	1 cut(s)	175
PaeR7I	CTCGAG	1 cut(s)	125
PagI	TCATGA	1 cut(s)	295
PciSI	GCTCTTC	1 cut(s)	23
PfeI	GAWTC	1 cut(s)	177
PleI	GAGTC	1 cut(s)	209
PpsI	GAGTC	1 cut(s)	209
PspXI	VCTCGAGB	1 cut(s)	125
SapI	GCTCTTC	1 cut(s)	23
Sau3AI	GATC	3 cut(s)	46, 74, 247
SchI	GAGTC	1 cut(s)	209
SduI	GDGCHC	1 cut(s)	55
SetI	ASST	6 cut(s)	35, 91, 138, 203, 229, 257
SfaNI	GCATC	2 cut(s)	91, 228
SfcI	CTRYAG	1 cut(s)	202
Sfr274I	CTCGAG	1 cut(s)	125
SfuI	TTCGAA	1 cut(s)	175
SlaI	CTCGAG	1 cut(s)	125
SmlI	CTYRAG	1 cut(s)	125
SmoI	CTYRAG	1 cut(s)	125
Sse9I	AATT	1 cut(s)	42
SsiI	CCGC	1 cut(s)	104
SspMI	CTAG	1 cut(s)	288
TaaI	ACNGT	1 cut(s)	81
TaiI	ACGT	1 cut(s)	91
TaqI	TCGA	2 cut(s)	126, 175
TasI	AATT	1 cut(s)	42
TfiI	GAWTC	1 cut(s)	177
TscAI	CASTG	1 cut(s)	289
TspDTI	ATGAA	1 cut(s)	312
TspGWI	ACGGA	3 cut(s)	159, 199, 227
TspRI	CASTG	1 cut(s)	289
XceI	RCATGY	1 cut(s)	307
XhoI	CTCGAG	1 cut(s)	125
XspI	CTAG	1 cut(s)	288
Zsp2I	ATGCAT	1 cut(s)	309

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