Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0004108

Physical Location & Seq

Genomic Coordinates Forward (+)

37286960 .. 37290741

Gene Structure 3782 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG334400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 420 bp

ATGGAGTCTGAGATGACAGTACATGATGGTGGGTGCCACTGCAAGAATGTAAGATGGCGAGTGCAAGCGCCTACTAAGGTTGTGGTTTGGAGTTGCAACTGTTCGAATTGCTCTATGAGGGGTAACACACATTTCATTGTCCCTTCTGAAAGATTTGAACTCTTGGGTAATTCTGAACAGTTTCTCACAACTTATAGCTTTGGTTCTCACACGGCAAAGCATACTTTCTGTAAGGTCTGTGGGATAACTTCGTTTTATTATCCACGCTCAAACCCTGATGGGGTTGCCATCACATATAGGTGTGTTGATCCTGGAACACTAACCTATGTTGAGGTCAAGTATTTTGATGGCCAAAATTGGGAAAACTCCTACAACCAGTCGAACATTGCTTCGCTGTCAAAGGTAGACTCTGGAAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000775 GO:0000776 GO:0001667 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0005819 GO:0005856 GO:0006323 GO:0006325 GO:0006333 GO:0006338 GO:0006928 GO:0006996 GO:0008150 GO:0009987 GO:0010564 GO:0015630 GO:0016043 GO:0016477 GO:0022607 GO:0031055 GO:0031497 GO:0031507 GO:0031508 GO:0032465 GO:0032467 GO:0032991 GO:0033043 GO:0033044 GO:0034508 GO:0034622 GO:0040011 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043933 GO:0044085 GO:0044422 GO:0044424 GO:0044427 GO:0044430 GO:0044446 GO:0044464 GO:0045787 GO:0048518 GO:0048522 GO:0048870 GO:0050789 GO:0050794 GO:0051128 GO:0051179 GO:0051233 GO:0051276 GO:0051302 GO:0051674 GO:0051726 GO:0051781 GO:0065003 GO:0065004 GO:0065007 GO:0070828 GO:0071103 GO:0071824 GO:0071840 GO:0090068 GO:0098687

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

GFA

Protein Analysis

139

Amino Acids

15.67

Weight (kDa)

6.93

Isoelectric Point (pI)

30.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GFA	PF04828	8 - 104	2.4e-12	Glutathione-dependent formaldehyde-activating enzyme

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0004108)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G16940 AT5G16940
fragaria_vesca	FvH4_1g30100 FvH4_1g30100 FvH4_1g30100
malus_domestica	MD09G1269100.v1.1 MD09G1269600.v1.1 MD09G1269800.v1.1 MD17G1267500.v1.1 MD17G1267700.v1.1
prunus_persica	Prupe.3G165600_v2.0.a1 Prupe.3G165600_v2.0.a1
pyrus_communis	pycom09g18100
rosa_chinensis	RchiOBHm_Chr3g0491661 RchiOBHm_Chr3g0491691 RchiOBHm_Chr3g0491731 RchiOBHm_Chr3g0491901
rosa_laevigata	RLG00000022814 RLG00000022830
rosa_multiflora	Rmu_sc0003786.1_g000006 Rmu_sc0009763.1_g000004 Rmu_sc0033062.1_g000001
rosa_roxburghii	Rroxscaffold_6G00392720
rosa_rugosa	Rorug03G0250800
rosa_samantha	Rh3AG299600 Rh3AG300400 Rh3BG336400 Rh3CG332600 Rh3CG333600 Rh3DG334400 Rh3DG335600
rosa_wichuraiana	Rw3G026480 Rw3G026550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	33
AccI	GTMKAC	1 cut(s)	405
AclWI	GGATC	1 cut(s)	302
AcoI	YGGCCR	1 cut(s)	349
AfaI	GTAC	1 cut(s)	21
AfiI	CCNNNNNNNGG	2 cut(s)	280, 358
AgsI	TTSAA	1 cut(s)	158
AjnI	CCWGG	1 cut(s)	310
AluBI	AGCT	1 cut(s)	198
AluI	AGCT	1 cut(s)	198
AlwI	GGATC	1 cut(s)	302
AoxI	GGCC	1 cut(s)	349
Asp700I	GAANNNNTTC	1 cut(s)	180
AspLEI	GCGC	1 cut(s)	70
AsuII	TTCGAA	1 cut(s)	104
BalI	TGGCCA	1 cut(s)	351
BanI	GGYRCC	1 cut(s)	33
BccI	CCATC	5 cut(s)	20, 48, 272, 296, 341
BceAI	ACGGC	1 cut(s)	228
BciT130I	CCWGG	1 cut(s)	312
BfoI	RGCGCY	1 cut(s)	71
Bme1390I	CCNGG	1 cut(s)	312
BmiI	GGNNCC	1 cut(s)	35
BmrFI	CCNGG	1 cut(s)	312
Bpu14I	TTCGAA	1 cut(s)	104
Bsc4I	CCNNNNNNNGG	2 cut(s)	280, 358
Bse1I	ACTGG	1 cut(s)	376
Bse3DI	GCAATG	1 cut(s)	384
BseBI	CCWGG	1 cut(s)	312
BseLI	CCNNNNNNNGG	2 cut(s)	280, 358
BseMI	GCAATG	1 cut(s)	384
BseNI	ACTGG	1 cut(s)	376
BshFI	GGCC	1 cut(s)	351
BshNI	GGYRCC	1 cut(s)	33
BslFI	GGGAC	1 cut(s)	125
BslI	CCNNNNNNNGG	2 cut(s)	280, 358
BsmFI	GGGAC	1 cut(s)	125
BsnI	GGCC	1 cut(s)	351
Bsp119I	TTCGAA	1 cut(s)	104
Bsp143I	GATC	1 cut(s)	307
BspANI	GGCC	1 cut(s)	351
BspLI	GGNNCC	1 cut(s)	35
BspPI	GGATC	1 cut(s)	302
BspT104I	TTCGAA	1 cut(s)	104
BspT107I	GGYRCC	1 cut(s)	33
BsrDI	GCAATG	1 cut(s)	384
BsrI	ACTGG	1 cut(s)	376
BssMI	GATC	1 cut(s)	307
Bst2UI	CCWGG	1 cut(s)	312
Bst4CI	ACNGT	3 cut(s)	19, 101, 180
BstBI	TTCGAA	1 cut(s)	104
BstC8I	GCNNGC	1 cut(s)	66
BstDEI	CTNAG	2 cut(s)	9, 75
BstH2I	RGCGCY	1 cut(s)	71
BstHHI	GCGC	1 cut(s)	70
BstKTI	GATC	1 cut(s)	310
BstMBI	GATC	1 cut(s)	307
BstNI	CCWGG	1 cut(s)	312
BstSCI	CCNGG	1 cut(s)	310
BsuRI	GGCC	1 cut(s)	351
BtsI	GCAGTG	1 cut(s)	37
BtsIMutI	CAGTG	1 cut(s)	37
Cac8I	GCNNGC	1 cut(s)	66
CfoI	GCGC	1 cut(s)	70
Csp6I	GTAC	1 cut(s)	20
CviAII	CATG	1 cut(s)	23
CviJI	RGCY	2 cut(s)	198, 351
CviKI_1	RGCY	2 cut(s)	198, 351
CviQI	GTAC	1 cut(s)	20
DdeI	CTNAG	2 cut(s)	9, 75
DpnI	GATC	1 cut(s)	309
DpnII	GATC	1 cut(s)	307
EaeI	YGGCCR	1 cut(s)	349
EcoRII	CCWGG	1 cut(s)	310
FaeI	CATG	1 cut(s)	26
FaiI	YATR	7 cut(s)	24, 116, 195, 222, 295, 297, 327
FaqI	GGGAC	1 cut(s)	125
FatI	CATG	1 cut(s)	22
FblI	GTMKAC	1 cut(s)	405
GlaI	GCGC	1 cut(s)	69
HaeII	RGCGCY	1 cut(s)	71
HaeIII	GGCC	1 cut(s)	351
HhaI	GCGC	1 cut(s)	70
Hin1II	CATG	1 cut(s)	26
Hin6I	GCGC	1 cut(s)	68
HinP1I	GCGC	1 cut(s)	68
HinfI	GANTC	2 cut(s)	5, 407
Hpy166II	GTNNAC	1 cut(s)	406
Hpy188I	TCNGA	3 cut(s)	10, 148, 175
Hpy188III	TCNNGA	1 cut(s)	411
Hpy8I	GTNNAC	1 cut(s)	406
HpyAV	CCTTC	1 cut(s)	153
HpyCH4III	ACNGT	3 cut(s)	19, 101, 180
HpyCH4V	TGCA	3 cut(s)	42, 64, 96
HpyF3I	CTNAG	2 cut(s)	9, 75
Hsp92II	CATG	1 cut(s)	26
HspAI	GCGC	1 cut(s)	68
Kzo9I	GATC	1 cut(s)	307
LpnPI	CCDG	5 cut(s)	288, 297, 324, 389, 396
MaeIII	GTNAC	1 cut(s)	122
MalI	GATC	1 cut(s)	309
MboI	GATC	1 cut(s)	307
MlsI	TGGCCA	1 cut(s)	351
MluCI	AATT	3 cut(s)	106, 169, 355
MluNI	TGGCCA	1 cut(s)	351
MlyI	GAGTC	2 cut(s)	14, 401
MnlI	CCTC	2 cut(s)	111, 325
Mox20I	TGGCCA	1 cut(s)	351
MroXI	GAANNNNTTC	1 cut(s)	180
MscI	TGGCCA	1 cut(s)	351
MslI	CAYNNNNRTG	2 cut(s)	27, 298
Msp20I	TGGCCA	1 cut(s)	351
MspR9I	CCNGG	1 cut(s)	312
MvaI	CCWGG	1 cut(s)	312
NdeII	GATC	1 cut(s)	307
NlaIII	CATG	1 cut(s)	26
NlaIV	GGNNCC	1 cut(s)	35
NspV	TTCGAA	1 cut(s)	104
PdmI	GAANNNNTTC	1 cut(s)	180
PfoI	TCCNGGA	1 cut(s)	310
PleI	GAGTC	2 cut(s)	13, 401
PpsI	GAGTC	2 cut(s)	13, 401
Psp6I	CCWGG	1 cut(s)	310
PspGI	CCWGG	1 cut(s)	310
PspN4I	GGNNCC	1 cut(s)	35
RsaI	GTAC	1 cut(s)	21
RsaNI	GTAC	1 cut(s)	20
RseI	CAYNNNNRTG	2 cut(s)	27, 298
Sau3AI	GATC	1 cut(s)	307
SchI	GAGTC	2 cut(s)	14, 401
ScrFI	CCNGG	1 cut(s)	312
SetI	ASST	7 cut(s)	81, 200, 237, 302, 326, 336, 405
SfuI	TTCGAA	1 cut(s)	104
SmiMI	CAYNNNNRTG	2 cut(s)	27, 298
Sse9I	AATT	3 cut(s)	106, 169, 355
StyD4I	CCNGG	1 cut(s)	310
TaaI	ACNGT	3 cut(s)	19, 101, 180
TaqI	TCGA	2 cut(s)	104, 380
TasI	AATT	3 cut(s)	106, 169, 355
TatI	WGTACW	1 cut(s)	19
TscAI	CASTG	1 cut(s)	44
TspDTI	ATGAA	1 cut(s)	124
TspRI	CASTG	1 cut(s)	44
XmiI	GTMKAC	1 cut(s)	405
XmnI	GAANNNNTTC	1 cut(s)	180

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