Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0003039

Physical Location & Seq

Genomic Coordinates Forward (+)

4819528 .. 4821958

Gene Structure 2431 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG027000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 330 bp

ATGGATGCGTTTGCGGTGGTACTGGTAGAGGGTGGAATCAAAAGCACCAGGAGGTATGCAAAATTAATGACACAGCGCATAAAATGGGCTCAAGCTGATGATGAACCTCCTACGAAGTGTGACTTGGTTTGGGAAGGCACTGTGGGCAAGCCCAGCTTTGTGGAGTTTTCACATCATCCATGCAACAATGAAGAGGAAGCTCAAAAGACATTTTCAGATGCATGTGTTGCACACTATTGGCATACAGCACTGGGTTCTCAGATGGGGAACTATCAAAAGCAAAGCAAAGCTCTGTCCCAAACTCTTAACCAATTCTCAGTCTCCATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0003006 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0010467 GO:0016070 GO:0016071 GO:0019219 GO:0019222 GO:0022414 GO:0030532 GO:0031323 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044030 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046540 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051052 GO:0051171 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

DUF1115 PRP3

Protein Analysis

109

Amino Acids

12.25

Weight (kDa)

6.4

Isoelectric Point (pI)

36.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Prp3_C	PF06544	3 - 83	2e-19	Small nuclear ribonucleoprotein Prp3, 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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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0003039)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G28060 AT1G28060 AT1G28060 AT3G55930
fragaria_vesca	FvH4_2g04410 FvH4_7g20820 FvH4_7g20820 FvH4_7g20820 FvH4_7g20820 FvH4_7g20820
malus_domestica	MD01G1117500.v1.1 MD07G1185000.v1.1
prunus_persica	Prupe.2G224900_v2.0.a1 Prupe.2G224900_v2.0.a1 Prupe.6G042200_v2.0.a1
pyrus_communis	pycom01g14520 pycom07g17720
rosa_chinensis	RchiOBHm_Chr1g0365041
rosa_laevigata	RLG00000027448
rosa_multiflora	Rmu_sc0002451.1_g000035
rosa_roxburghii	Rroxscaffold_4G00291520 Rroxscaffold_4G00291970
rosa_rugosa	Rorug01G0319100 Rorug01G0319200
rosa_samantha	Rh1AG188900 Rh1AG328200 Rh1BG289700 Rh1CG174500 Rh1CG306300 Rh1DG163200 Rh1DG321100 Rh4DG027000
rosa_wichuraiana	Rw1G029120 Rw2G017970 Rw3G016000 Rw4G013150 Rw5G015830 Rw5G032310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	14
AfaI	GTAC	1 cut(s)	21
AjnI	CCWGG	1 cut(s)	47
AjuI	GAANNNNNNNTTGG	2 cut(s)	107, 139
AluBI	AGCT	4 cut(s)	95, 156, 200, 290
AluI	AGCT	4 cut(s)	95, 156, 200, 290
Alw26I	GTCTC	1 cut(s)	325
AseI	ATTAAT	1 cut(s)	65
AspLEI	GCGC	1 cut(s)	78
BanII	GRGCYC	1 cut(s)	91
BccI	CCATC	1 cut(s)	256
BciT130I	CCWGG	1 cut(s)	49
BcoDI	GTCTC	1 cut(s)	325
Bme1390I	CCNGG	1 cut(s)	49
BmrFI	CCNGG	1 cut(s)	49
BmrI	ACTGGG	1 cut(s)	260
BmsI	GCATC	1 cut(s)	208
BmuI	ACTGGG	1 cut(s)	260
BpuEI	CTTGAG	1 cut(s)	75
Bse1I	ACTGG	2 cut(s)	27, 255
BseBI	CCWGG	1 cut(s)	49
BseGI	GGATG	2 cut(s)	10, 175
BseMII	CTCAG	2 cut(s)	272, 330
BseNI	ACTGG	2 cut(s)	27, 255
BseYI	CCCAGC	1 cut(s)	152
BslFI	GGGAC	1 cut(s)	280
BsmAI	GTCTC	1 cut(s)	325
BsmFI	GGGAC	1 cut(s)	280
Bsp1286I	GDGCHC	1 cut(s)	91
BspACI	CCGC	1 cut(s)	14
BspCNI	CTCAG	2 cut(s)	271, 329
BsrI	ACTGG	2 cut(s)	27, 255
Bst2UI	CCWGG	1 cut(s)	49
Bst4CI	ACNGT	1 cut(s)	142
Bst6I	CTCTTC	1 cut(s)	186
BstAPI	GCANNNNNTGC	1 cut(s)	227
BstC8I	GCNNGC	1 cut(s)	149
BstDEI	CTNAG	2 cut(s)	258, 316
BstF5I	GGATG	2 cut(s)	10, 175
BstHHI	GCGC	1 cut(s)	78
BstMAI	GTCTC	1 cut(s)	325
BstMWI	GCNNNNNNNGC	3 cut(s)	144, 153, 227
BstNI	CCWGG	1 cut(s)	49
BstNSI	RCATGY	1 cut(s)	225
BstSCI	CCNGG	1 cut(s)	47
BstXI	CCANNNNNNTGG	1 cut(s)	160
BtsCI	GGATG	2 cut(s)	10, 175
BtsIMutI	CAGTG	2 cut(s)	138, 248
Cac8I	GCNNGC	1 cut(s)	149
CfoI	GCGC	1 cut(s)	78
Csp6I	GTAC	1 cut(s)	20
CviAII	CATG	2 cut(s)	180, 222
CviJI	RGCY	6 cut(s)	89, 95, 151, 156, 200, 290
CviKI_1	RGCY	6 cut(s)	89, 95, 151, 156, 200, 290
CviQI	GTAC	1 cut(s)	20
DdeI	CTNAG	2 cut(s)	258, 316
Eam1104I	CTCTTC	1 cut(s)	186
EarI	CTCTTC	1 cut(s)	186
Eco24I	GRGCYC	1 cut(s)	91
EcoRII	CCWGG	1 cut(s)	47
EcoT22I	ATGCAT	1 cut(s)	223
EcoT38I	GRGCYC	1 cut(s)	91
FaeI	CATG	2 cut(s)	183, 225
FaiI	YATR	5 cut(s)	57, 80, 181, 223, 243
FalI	AAGNNNNNCTT	4 cut(s)	107, 139, 140, 172
FaqI	GGGAC	1 cut(s)	280
FatI	CATG	2 cut(s)	179, 221
FokI	GGATG	2 cut(s)	17, 162
FriOI	GRGCYC	1 cut(s)	91
GlaI	GCGC	1 cut(s)	77
GsaI	CCCAGC	1 cut(s)	156
HhaI	GCGC	1 cut(s)	78
Hin1II	CATG	2 cut(s)	183, 225
Hin6I	GCGC	1 cut(s)	76
HinP1I	GCGC	1 cut(s)	76
HinfI	GANTC	1 cut(s)	36
Hpy188I	TCNGA	2 cut(s)	217, 261
HpyAV	CCTTC	1 cut(s)	128
HpyCH4III	ACNGT	1 cut(s)	142
HpyCH4V	TGCA	4 cut(s)	59, 183, 221, 230
HpyF10VI	GCNNNNNNNGC	3 cut(s)	144, 153, 227
HpyF3I	CTNAG	2 cut(s)	258, 316
Hsp92II	CATG	2 cut(s)	183, 225
HspAI	GCGC	1 cut(s)	76
LpnPI	CCDG	5 cut(s)	8, 34, 61, 166, 236
LweI	GCATC	1 cut(s)	208
MaeIII	GTNAC	1 cut(s)	119
MboII	GAAGA	1 cut(s)	203
MhlI	GDGCHC	1 cut(s)	91
MluCI	AATT	2 cut(s)	62, 311
MnlI	CCTC	4 cut(s)	22, 45, 117, 187
Mph1103I	ATGCAT	1 cut(s)	223
MseI	TTAA	2 cut(s)	65, 306
MspR9I	CCNGG	1 cut(s)	49
MvaI	CCWGG	1 cut(s)	49
MwoI	GCNNNNNNNGC	3 cut(s)	144, 153, 227
NlaIII	CATG	2 cut(s)	183, 225
NmuCI	GTSAC	1 cut(s)	119
NsiI	ATGCAT	1 cut(s)	223
NspI	RCATGY	1 cut(s)	225
PfeI	GAWTC	1 cut(s)	36
PshBI	ATTAAT	1 cut(s)	65
Psp6I	CCWGG	1 cut(s)	47
PspFI	CCCAGC	1 cut(s)	152
PspGI	CCWGG	1 cut(s)	47
RsaI	GTAC	1 cut(s)	21
RsaNI	GTAC	1 cut(s)	20
SaqAI	TTAA	2 cut(s)	65, 306
ScrFI	CCNGG	1 cut(s)	49
SduI	GDGCHC	1 cut(s)	91
SetI	ASST	6 cut(s)	56, 97, 109, 158, 202, 292
SfaNI	GCATC	1 cut(s)	208
SmlI	CTYRAG	1 cut(s)	90
SmoI	CTYRAG	1 cut(s)	90
Sse9I	AATT	2 cut(s)	62, 311
SsiI	CCGC	1 cut(s)	14
StyD4I	CCNGG	1 cut(s)	47
TaaI	ACNGT	1 cut(s)	142
TasI	AATT	2 cut(s)	62, 311
TfiI	GAWTC	1 cut(s)	36
Tru1I	TTAA	2 cut(s)	65, 306
Tru9I	TTAA	2 cut(s)	65, 306
TscAI	CASTG	2 cut(s)	145, 255
TseFI	GTSAC	1 cut(s)	119
Tsp45I	GTSAC	1 cut(s)	119
TspDTI	ATGAA	2 cut(s)	117, 204
TspRI	CASTG	2 cut(s)	145, 255
VspI	ATTAAT	1 cut(s)	65
XceI	RCATGY	1 cut(s)	225
Zsp2I	ATGCAT	1 cut(s)	223

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