Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001333

Physical Location & Seq

Genomic Coordinates Reverse (-)

4030127 .. 4037083

Gene Structure 6957 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG055400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 234 bp

ATGAAATCTATATCGCCTGCGCAGCGGAGAGGCTGCTTGGTGTCCCCAAGACAAGGAAAGATAAATGTGCAAGCAATAGAATCTGGTCTTCCACACAAGGATGTTAAGACAATGTGTTTGAAGTATGCCGAGCTAGAGAAGAGCTTGGCTGAAATTGATCGTGCTCGGAGAATTAAGTTAGATCATCTAATTATACATCTACTAAAGCCCCTAGAGCTAGCACTGTTTGAGTGA

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

77

Amino Acids

8.76

Weight (kDa)

9.56

Isoelectric Point (pI)

56.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HAT_Syf1_CNRKL1_C	PF23231	19 - 58	6.8e-11	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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Publication-ready

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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)
Acc16I	TGCGCA	1 cut(s)	21
AciI	CCGC	1 cut(s)	25
AfiI	CCNNNNNNNGG	1 cut(s)	53
AgsI	TTSAA	1 cut(s)	121
AluBI	AGCT	3 cut(s)	133, 144, 217
AluI	AGCT	3 cut(s)	133, 144, 217
Alw21I	GWGCWC	1 cut(s)	166
ApeKI	GCWGC	2 cut(s)	22, 33
ArsI	GACNNNNNNTTYG	2 cut(s)	100, 132
AspLEI	GCGC	1 cut(s)	22
AsuNHI	GCTAGC	1 cut(s)	217
BbsI	GAAGAC	1 cut(s)	80
Bbv12I	GWGCWC	1 cut(s)	166
BbvI	GCAGC	2 cut(s)	20, 34
BfaI	CTAG	3 cut(s)	134, 212, 218
BisI	GCNGC	2 cut(s)	23, 34
BlsI	GCNGC	2 cut(s)	24, 35
BmtI	GCTAGC	1 cut(s)	221
BpiI	GAAGAC	1 cut(s)	80
Bsc4I	CCNNNNNNNGG	1 cut(s)	53
BseGI	GGATG	1 cut(s)	106
BseLI	CCNNNNNNNGG	1 cut(s)	53
BseXI	GCAGC	2 cut(s)	20, 34
BsiHKAI	GWGCWC	1 cut(s)	166
BslFI	GGGAC	1 cut(s)	28
BslI	CCNNNNNNNGG	1 cut(s)	53
BsmFI	GGGAC	1 cut(s)	28
Bsp1286I	GDGCHC	1 cut(s)	166
Bsp143I	GATC	2 cut(s)	157, 181
BspACI	CCGC	1 cut(s)	25
BspOI	GCTAGC	1 cut(s)	221
BspQI	GCTCTTC	1 cut(s)	134
BssMI	GATC	2 cut(s)	157, 181
Bst4CI	ACNGT	1 cut(s)	225
Bst6I	CTCTTC	1 cut(s)	134
BstC8I	GCNNGC	3 cut(s)	18, 72, 219
BstF5I	GGATG	1 cut(s)	106
BstHHI	GCGC	1 cut(s)	22
BstKTI	GATC	2 cut(s)	160, 184
BstMBI	GATC	2 cut(s)	157, 181
BstMWI	GCNNNNNNNGC	2 cut(s)	22, 214
BstV1I	GCAGC	2 cut(s)	20, 34
BstV2I	GAAGAC	1 cut(s)	80
BtsCI	GGATG	1 cut(s)	106
BtsIMutI	CAGTG	1 cut(s)	221
Cac8I	GCNNGC	3 cut(s)	18, 72, 219
CfoI	GCGC	1 cut(s)	22
CviJI	RGCY	6 cut(s)	33, 133, 144, 149, 208, 217
CviKI_1	RGCY	6 cut(s)	33, 133, 144, 149, 208, 217
DpnI	GATC	2 cut(s)	159, 183
DpnII	GATC	2 cut(s)	157, 181
Eam1104I	CTCTTC	1 cut(s)	134
EarI	CTCTTC	1 cut(s)	134
FaiI	YATR	3 cut(s)	11, 126, 194
FaqI	GGGAC	1 cut(s)	28
Fnu4HI	GCNGC	2 cut(s)	23, 34
FokI	GGATG	1 cut(s)	113
Fsp4HI	GCNGC	2 cut(s)	23, 34
FspBI	CTAG	3 cut(s)	134, 212, 218
FspI	TGCGCA	1 cut(s)	21
GlaI	GCGC	1 cut(s)	21
GluI	GCNGC	2 cut(s)	23, 34
HhaI	GCGC	1 cut(s)	22
Hin6I	GCGC	1 cut(s)	20
HinP1I	GCGC	1 cut(s)	20
HinfI	GANTC	1 cut(s)	80
Hpy188I	TCNGA	1 cut(s)	168
HpyCH4III	ACNGT	1 cut(s)	225
HpyCH4V	TGCA	1 cut(s)	70
HpyF10VI	GCNNNNNNNGC	2 cut(s)	22, 214
HspAI	GCGC	1 cut(s)	20
Kzo9I	GATC	2 cut(s)	157, 181
LguI	GCTCTTC	1 cut(s)	134
LpnPI	CCDG	2 cut(s)	30, 69
Lsp1109I	GCAGC	2 cut(s)	20, 34
MaeI	CTAG	3 cut(s)	134, 212, 218
MalI	GATC	2 cut(s)	159, 183
MboI	GATC	2 cut(s)	157, 181
MboII	GAAGA	2 cut(s)	80, 151
MhlI	GDGCHC	1 cut(s)	166
MluCI	AATT	3 cut(s)	153, 171, 189
MnlI	CCTC	1 cut(s)	23
MseI	TTAA	2 cut(s)	105, 174
MslI	CAYNNNNRTG	1 cut(s)	99
MspA1I	CMGCKG	1 cut(s)	25
MwoI	GCNNNNNNNGC	2 cut(s)	22, 214
NdeII	GATC	2 cut(s)	157, 181
NheI	GCTAGC	1 cut(s)	217
NmeAIII	GCCGAG	1 cut(s)	154
NsbI	TGCGCA	1 cut(s)	21
PciSI	GCTCTTC	1 cut(s)	134
PfeI	GAWTC	1 cut(s)	80
PkrI	GCNGC	2 cut(s)	24, 35
RseI	CAYNNNNRTG	1 cut(s)	99
SapI	GCTCTTC	1 cut(s)	134
SaqAI	TTAA	2 cut(s)	105, 174
SatI	GCNGC	2 cut(s)	23, 34
Sau3AI	GATC	2 cut(s)	157, 181
SduI	GDGCHC	1 cut(s)	166
SetI	ASST	3 cut(s)	135, 146, 219
SmiMI	CAYNNNNRTG	1 cut(s)	99
Sse9I	AATT	3 cut(s)	153, 171, 189
SsiI	CCGC	1 cut(s)	25
SspMI	CTAG	3 cut(s)	134, 212, 218
TaaI	ACNGT	1 cut(s)	225
TasI	AATT	3 cut(s)	153, 171, 189
TfiI	GAWTC	1 cut(s)	80
Tru1I	TTAA	2 cut(s)	105, 174
Tru9I	TTAA	2 cut(s)	105, 174
TscAI	CASTG	1 cut(s)	228
TseI	GCWGC	2 cut(s)	22, 33
TspDTI	ATGAA	1 cut(s)	17
TspRI	CASTG	1 cut(s)	228
XspI	CTAG	3 cut(s)	134, 212, 218

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