Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0003932

Physical Location & Seq

Genomic Coordinates Reverse (-)

27562235 .. 27562618

Gene Structure 384 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG146000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 384 bp

ATGCGCAATCACCTCGGAAGCTATGAGTGTAAACTTTGCTTGACCTTGCACAACAATGAGGGTAACTACTTGGCCCATACACAGGGAAAGCGCCACCAGACCTATCTCGCCAAGCGGGCCGCGCGTGAGGCCAAGGATATTCCTGCTCAGCCCCAGCCCCACAAGCACAAAGTCTCCGTTCGCAAAACAGTGAAAATTGGTAGGCCGGGCTATAGAGTAACAAAGCAGTTTGATGGAGAGACAAAGCAAAGGTCTCTTCTCTTCCAGATTGAGTATCCGGAAATAGAAGATAATGCAAAGCCAAGGCATCGTTTTATGTCATCTTATGAGCAGAGGGTCCAACCCTATGAGAAAAGATACCAGTATCTTCTGTTTGCAGCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005684 GO:0005686 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0007399 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0010720 GO:0010975 GO:0010976 GO:0016043 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0022008 GO:0022607 GO:0022613 GO:0022618 GO:0030154 GO:0030532 GO:0031344 GO:0031346 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045595 GO:0045597 GO:0045664 GO:0045666 GO:0046483 GO:0048518 GO:0048522 GO:0048699 GO:0048731 GO:0048856 GO:0048869 GO:0050767 GO:0050769 GO:0050789 GO:0050793 GO:0050794 GO:0051094 GO:0051128 GO:0051130 GO:0051239 GO:0051240 GO:0051960 GO:0051962 GO:0060284 GO:0065003 GO:0065007 GO:0070013 GO:0071004 GO:0071010 GO:0071013 GO:0071704 GO:0071826 GO:0071840 GO:0090304 GO:0097159 GO:0097525 GO:0120035 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1990904 GO:2000026

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

SF3A2 zf-met

Protein Analysis

127

Amino Acids

15.06

Weight (kDa)

9.89

Isoelectric Point (pI)

53.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-met	PF12874	8 - 32	2.7e-07	Zinc-finger of C2H2 type
SF3A2	PF16835	66 - 127	1.6e-21	Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11)

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: OG0003932)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G32600
fragaria_vesca	FvH4_6g16880 FvH4_6g16880 FvH4_6g16880 FvH4_6g16880
malus_domestica	MD04G1088800.v1.1 MD12G1106500.v1.1
prunus_persica	Prupe.4G071900_v2.0.a1 Prupe.7G125300_v2.0.a1 Prupe.7G125300_v2.0.a1
pyrus_communis	pycom04g08310 pycom12g10700
rosa_chinensis	RchiOBHm_Chr3g0470901 RchiOBHm_Chr7g0191101
rosa_laevigata	RLG00000024235 RLG00000025908
rosa_multiflora	Rmu_co8030388.1_g000001 Rmu_sc0005903.1_g000001 Rmu_sc0010267.1_g000002 Rmu_sc0030335.1_g000001
rosa_roxburghii	Rroxscaffold_3G00264030 Rroxscaffold_6G00410430 Rroxscaffold_6G00426670
rosa_rugosa	Rorug03G0113500 Rorug06G0508500
rosa_samantha	Rh1AG146000 Rh1DG152700 Rh3AG163300 Rh3BG188700 Rh3CG178700 Rh3DG187400 Rh7BG118500 Rh7CG121000
rosa_wichuraiana	Rw3G015380

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	5
AccII	CGCG	2 cut(s)	122, 124
AccIII	TCCGGA	1 cut(s)	277
AciI	CCGC	2 cut(s)	115, 120
AfiI	CCNNNNNNNGG	1 cut(s)	82
AluBI	AGCT	1 cut(s)	21
AluI	AGCT	1 cut(s)	21
Alw26I	GTCTC	3 cut(s)	178, 233, 258
Aor13HI	TCCGGA	1 cut(s)	277
AoxI	GGCC	4 cut(s)	72, 117, 129, 203
ApeKI	GCWGC	1 cut(s)	377
ArsI	GACNNNNNNTTYG	2 cut(s)	236, 268
AspLEI	GCGC	3 cut(s)	6, 93, 124
AspS9I	GGNCC	3 cut(s)	73, 117, 337
AsuC2I	CCSGG	1 cut(s)	207
AvaII	GGWCC	1 cut(s)	337
BccI	CCATC	1 cut(s)	227
BcgI	CGANNNNNNTGC	1 cut(s)	29
BciVI	GTATCC	1 cut(s)	285
BcnI	CCSGG	1 cut(s)	207
BcoDI	GTCTC	3 cut(s)	178, 233, 258
BfmI	CTRYAG	1 cut(s)	211
BfoI	RGCGCY	1 cut(s)	94
BfuI	GTATCC	1 cut(s)	285
BglI	GCCNNNNNGGC	1 cut(s)	116
BisI	GCNGC	2 cut(s)	120, 378
BlpI	GCTNAGC	1 cut(s)	147
BlsI	GCNGC	2 cut(s)	121, 379
Bme1390I	CCNGG	1 cut(s)	207
Bme18I	GGWCC	1 cut(s)	337
BmgT120I	GGNCC	3 cut(s)	73, 117, 337
BmiI	GGNNCC	1 cut(s)	338
BmrFI	CCNGG	1 cut(s)	207
BmsI	GCATC	1 cut(s)	316
Bpu1102I	GCTNAGC	1 cut(s)	147
BpuMI	CCSGG	1 cut(s)	207
BsaI	GGTCTC	1 cut(s)	258
BsaJI	CCNNGG	3 cut(s)	13, 132, 302
BsaWI	WCCGGW	1 cut(s)	277
BsaXI	ACNNNNNCTCC	2 cut(s)	158, 188
Bsc4I	CCNNNNNNNGG	1 cut(s)	82
Bse1I	ACTGG	1 cut(s)	361
BseAI	TCCGGA	1 cut(s)	277
BseDI	CCNNGG	3 cut(s)	13, 132, 302
BseLI	CCNNNNNNNGG	1 cut(s)	82
BseMII	CTCAG	1 cut(s)	161
BseNI	ACTGG	1 cut(s)	361
BseYI	CCCAGC	1 cut(s)	153
Bsh1236I	CGCG	2 cut(s)	122, 124
BshFI	GGCC	4 cut(s)	74, 119, 131, 205
BsiSI	CCGG	2 cut(s)	206, 278
BslI	CCNNNNNNNGG	1 cut(s)	82
BsmAI	GTCTC	3 cut(s)	178, 233, 258
BsnI	GGCC	4 cut(s)	74, 119, 131, 205
Bso31I	GGTCTC	1 cut(s)	258
Bsp13I	TCCGGA	1 cut(s)	277
Bsp1720I	GCTNAGC	1 cut(s)	147
BspACI	CCGC	2 cut(s)	115, 120
BspANI	GGCC	4 cut(s)	74, 119, 131, 205
BspCNI	CTCAG	1 cut(s)	160
BspEI	TCCGGA	1 cut(s)	277
BspFNI	CGCG	2 cut(s)	122, 124
BspLI	GGNNCC	1 cut(s)	338
BspTNI	GGTCTC	1 cut(s)	258
BsrI	ACTGG	1 cut(s)	361
BssECI	CCNNGG	3 cut(s)	13, 132, 302
BssT1I	CCWWGG	2 cut(s)	132, 302
Bst4CI	ACNGT	1 cut(s)	190
Bst6I	CTCTTC	2 cut(s)	261, 266
BstC8I	GCNNGC	1 cut(s)	117
BstDEI	CTNAG	1 cut(s)	147
BstFNI	CGCG	2 cut(s)	122, 124
BstH2I	RGCGCY	1 cut(s)	94
BstHHI	GCGC	3 cut(s)	6, 93, 124
BstMAI	GTCTC	3 cut(s)	178, 233, 258
BstMWI	GCNNNNNNNGC	4 cut(s)	116, 121, 128, 163
BstSCI	CCNGG	1 cut(s)	205
BstSFI	CTRYAG	1 cut(s)	211
BstUI	CGCG	2 cut(s)	122, 124
BsuI	GTATCC	1 cut(s)	285
BsuRI	GGCC	4 cut(s)	74, 119, 131, 205
BtsIMutI	CAGTG	1 cut(s)	195
Cac8I	GCNNGC	1 cut(s)	117
CfoI	GCGC	3 cut(s)	6, 93, 124
Cfr13I	GGNCC	3 cut(s)	73, 117, 337
DdeI	CTNAG	1 cut(s)	147
Eam1104I	CTCTTC	2 cut(s)	261, 266
EarI	CTCTTC	2 cut(s)	261, 266
Eco130I	CCWWGG	2 cut(s)	132, 302
Eco31I	GGTCTC	1 cut(s)	258
Eco47I	GGWCC	1 cut(s)	337
EcoT14I	CCWWGG	2 cut(s)	132, 302
ErhI	CCWWGG	2 cut(s)	132, 302
FaiI	YATR	6 cut(s)	24, 78, 213, 317, 327, 348
FauI	CCCGC	1 cut(s)	108
Fnu4HI	GCNGC	2 cut(s)	120, 378
Fsp4HI	GCNGC	2 cut(s)	120, 378
FspI	TGCGCA	1 cut(s)	5
GlaI	GCGC	3 cut(s)	5, 92, 123
GluI	GCNGC	2 cut(s)	120, 378
GsaI	CCCAGC	1 cut(s)	157
HaeII	RGCGCY	1 cut(s)	94
HaeIII	GGCC	4 cut(s)	74, 119, 131, 205
HapII	CCGG	2 cut(s)	206, 278
HhaI	GCGC	3 cut(s)	6, 93, 124
Hin6I	GCGC	3 cut(s)	4, 91, 122
HinP1I	GCGC	3 cut(s)	4, 91, 122
HpaII	CCGG	2 cut(s)	206, 278
Hpy166II	GTNNAC	1 cut(s)	32
Hpy188I	TCNGA	1 cut(s)	17
Hpy188III	TCNNGA	2 cut(s)	265, 278
Hpy8I	GTNNAC	1 cut(s)	32
HpyCH4III	ACNGT	1 cut(s)	190
HpyCH4V	TGCA	3 cut(s)	49, 296, 377
HpyF10VI	GCNNNNNNNGC	4 cut(s)	116, 121, 128, 163
HpyF3I	CTNAG	1 cut(s)	147
HspAI	GCGC	3 cut(s)	4, 91, 122
Kpn2I	TCCGGA	1 cut(s)	277
LpnPI	CCDG	8 cut(s)	68, 110, 156, 167, 219, 278, 291, 374
LweI	GCATC	1 cut(s)	316
MaeIII	GTNAC	2 cut(s)	62, 217
MboII	GAAGA	4 cut(s)	248, 253, 299, 359
MluCI	AATT	1 cut(s)	195
MmeI	TCCRAC	1 cut(s)	364
MnlI	CCTC	4 cut(s)	23, 52, 121, 327
MroI	TCCGGA	1 cut(s)	277
MslI	CAYNNNNRTG	1 cut(s)	54
MspI	CCGG	2 cut(s)	206, 278
MspR9I	CCNGG	1 cut(s)	207
MvnI	CGCG	2 cut(s)	122, 124
MwoI	GCNNNNNNNGC	4 cut(s)	116, 121, 128, 163
NciI	CCSGG	1 cut(s)	207
NlaIV	GGNNCC	1 cut(s)	338
NsbI	TGCGCA	1 cut(s)	5
PkrI	GCNGC	2 cut(s)	121, 379
PspFI	CCCAGC	1 cut(s)	153
PspN4I	GGNNCC	1 cut(s)	338
PspPI	GGNCC	3 cut(s)	73, 117, 337
RseI	CAYNNNNRTG	1 cut(s)	54
SatI	GCNGC	2 cut(s)	120, 378
Sau96I	GGNCC	3 cut(s)	73, 117, 337
ScrFI	CCNGG	1 cut(s)	207
SetI	ASST	5 cut(s)	15, 23, 47, 104, 254
SfaNI	GCATC	1 cut(s)	316
SfcI	CTRYAG	1 cut(s)	211
SinI	GGWCC	1 cut(s)	337
SmiMI	CAYNNNNRTG	1 cut(s)	54
Sse9I	AATT	1 cut(s)	195
SsiI	CCGC	2 cut(s)	115, 120
StyD4I	CCNGG	1 cut(s)	205
StyI	CCWWGG	2 cut(s)	132, 302
TaaI	ACNGT	1 cut(s)	190
TasI	AATT	1 cut(s)	195
TauI	GCSGC	1 cut(s)	122
TscAI	CASTG	1 cut(s)	195
TseI	GCWGC	1 cut(s)	377
TspGWI	ACGGA	1 cut(s)	166
TspRI	CASTG	1 cut(s)	195
VpaK11BI	GGWCC	1 cut(s)	337

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