Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000937

Physical Location & Seq

Genomic Coordinates Forward (+)

13078642 .. 13079410

Gene Structure 769 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG085900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 303 bp

ATGAATCCAGAGGAACTAATTAAAGAGGAAACGAGGTCTCTAGAAGGGTTCTACGAAGAACTCCCTATCGCAAAAAAAATTGCTGTAGTGAATTCAGTAACTGTTTCTATCAGGAAGTGCCCTGAGACAGCTAAGAATCTTCTATATTTGGAAACAGATTTACCTGATCATGTTGTTGTTCACTGGGGAGTTTGCAAAGATGATGCTAAAAGATGGGAAATTCCAGCAGCCCCACATCCGCCAGAAACAGTAGTTTTCAAGGATAAGGCTTTGCGAACTCGACTGCAGTGTCAAGACTTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000272 GO:0003674 GO:0003824 GO:0004553 GO:0004556 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005975 GO:0005976 GO:0005982 GO:0005983 GO:0005984 GO:0005985 GO:0005987 GO:0006073 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009251 GO:0009311 GO:0009313 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009987 GO:0016052 GO:0016160 GO:0016787 GO:0016798 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044042 GO:0044237 GO:0044238 GO:0044247 GO:0044248 GO:0044260 GO:0044262 GO:0044264 GO:0044275 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046352 GO:0071704 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Alpha-amyl_C2 Alpha-amylase

Protein Analysis

100

Amino Acids

11.45

Weight (kDa)

5.59

Isoelectric Point (pI)

52.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ig_N_CWD1	PF23166	23 - 96	3.6e-23	Alpha-glucan water dikinase 1 Ig-like N-terminal domain

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: OG0000937)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G69830
fragaria_vesca	FvH4_4g31910 FvH4_4g31910
malus_domestica	MD13G1078600.v1.1 MD16G1078200.v1.1
prunus_persica	Prupe.1G268300_v2.0.a1 Prupe.1G268300_v2.0.a1
pyrus_communis	pycom13g06820 pycom16g06770
rosa_chinensis	RchiOBHm_Chr1g0315221 RchiOBHm_Chr1g0339091 RchiOBHm_Chr4g0440561 RchiOBHm_Chr5g0021421 RchiOBHm_Chr6g0272311
rosa_laevigata	RLG00000006168 RLG00000015039 RLG00000019642 RLG00000030692
rosa_multiflora	Rmu_co8071990.1_g000001 Rmu_sc0000829.1_g000011 Rmu_sc0002387.1_g000011 Rmu_sc0011312.1_g000002
rosa_roxburghii	Rroxscaffold_4G00298760 Rroxscaffold_5G00381380 Rroxscaffold_6G00426500 Rroxscaffold_7G00169140 Rroxscaffold_7G00214180
rosa_rugosa	Rorug01G0004200 Rorug04G0326700 Rorug05G0356300 Rorug05G0477400 Rorug05G0527600 Rorug07G0284000
rosa_samantha	Rh1AG270700 Rh1AG270800 Rh1AG346400 Rh1BG260100 Rh1CG254500 Rh2AG416800 Rh2CG403000 Rh3DG074600 Rh3DG292400 Rh4AG190200 Rh4AG246600 Rh4AG378400 Rh4BG035500 Rh4BG391100 Rh4CG405800 Rh4DG085900 Rh4DG385000 Rh5AG156300 Rh5AG268600 Rh5AG480700 Rh5BG155700 Rh5CG169500 Rh6AG024000 Rh6BG089200 Rh6DG025600 Rh7CG251800
rosa_wichuraiana	Rw1G024120 Rw1G030800 Rw4G032400 Rw4G032500 Rw7G034860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	301
AasI	GACNNNNNNGTC	1 cut(s)	288
AciI	CCGC	1 cut(s)	239
AcsI	RAATTY	2 cut(s)	91, 219
AgsI	TTSAA	1 cut(s)	259
AluBI	AGCT	1 cut(s)	131
AluI	AGCT	1 cut(s)	131
Alw26I	GTCTC	2 cut(s)	42, 119
AlwNI	CAGNNNCTG	1 cut(s)	101
ApeKI	GCWGC	1 cut(s)	227
ApoI	RAATTY	2 cut(s)	91, 219
BaeGI	GKGCMC	1 cut(s)	122
BbvI	GCAGC	1 cut(s)	239
BccI	CCATC	1 cut(s)	207
BclI	TGATCA	1 cut(s)	166
BcoDI	GTCTC	2 cut(s)	42, 119
BfaI	CTAG	1 cut(s)	41
BfmI	CTRYAG	2 cut(s)	84, 284
BisI	GCNGC	1 cut(s)	228
BlsI	GCNGC	1 cut(s)	229
BmrI	ACTGGG	1 cut(s)	193
BmsI	GCATC	1 cut(s)	193
BmuI	ACTGGG	1 cut(s)	193
BsaI	GGTCTC	1 cut(s)	42
Bse1I	ACTGG	1 cut(s)	188
BseGI	GGATG	1 cut(s)	235
BseMII	CTCAG	1 cut(s)	114
BseNI	ACTGG	1 cut(s)	188
BseSI	GKGCMC	1 cut(s)	122
BseXI	GCAGC	1 cut(s)	239
BsmAI	GTCTC	2 cut(s)	42, 119
Bso31I	GGTCTC	1 cut(s)	42
Bsp1286I	GDGCHC	1 cut(s)	122
Bsp143I	GATC	1 cut(s)	166
BspACI	CCGC	1 cut(s)	239
BspCNI	CTCAG	1 cut(s)	115
BspMAI	CTGCAG	1 cut(s)	288
BspTNI	GGTCTC	1 cut(s)	42
BsrI	ACTGG	1 cut(s)	188
BssMI	GATC	1 cut(s)	166
Bst4CI	ACNGT	2 cut(s)	103, 250
BstDEI	CTNAG	2 cut(s)	123, 132
BstF5I	GGATG	1 cut(s)	235
BstKTI	GATC	1 cut(s)	169
BstMAI	GTCTC	2 cut(s)	42, 119
BstMBI	GATC	1 cut(s)	166
BstSFI	CTRYAG	2 cut(s)	84, 284
BstSLI	GKGCMC	1 cut(s)	122
BstV1I	GCAGC	1 cut(s)	239
BtsCI	GGATG	1 cut(s)	235
BtsI	GCAGTG	1 cut(s)	293
BtsIMutI	CAGTG	2 cut(s)	181, 293
CaiI	CAGNNNCTG	1 cut(s)	101
CviAII	CATG	1 cut(s)	170
CviJI	RGCY	3 cut(s)	131, 230, 269
CviKI_1	RGCY	3 cut(s)	131, 230, 269
DdeI	CTNAG	2 cut(s)	123, 132
DpnI	GATC	1 cut(s)	168
DpnII	GATC	1 cut(s)	166
DrdI	GACNNNNNNGTC	1 cut(s)	288
DseDI	GACNNNNNNGTC	1 cut(s)	288
EciI	GGCGGA	1 cut(s)	228
Eco31I	GGTCTC	1 cut(s)	42
EcoRI	GAATTC	1 cut(s)	91
FaeI	CATG	1 cut(s)	173
FaiI	YATR	3 cut(s)	145, 171, 301
FatI	CATG	1 cut(s)	169
FbaI	TGATCA	1 cut(s)	166
Fnu4HI	GCNGC	1 cut(s)	228
FokI	GGATG	1 cut(s)	222
Fsp4HI	GCNGC	1 cut(s)	228
FspBI	CTAG	1 cut(s)	41
GluI	GCNGC	1 cut(s)	228
Hin1II	CATG	1 cut(s)	173
HinfI	GANTC	2 cut(s)	4, 136
Hpy166II	GTNNAC	1 cut(s)	181
Hpy188III	TCNNGA	4 cut(s)	8, 41, 112, 293
Hpy8I	GTNNAC	1 cut(s)	181
HpyAV	CCTTC	1 cut(s)	38
HpyCH4III	ACNGT	2 cut(s)	103, 250
HpyCH4V	TGCA	2 cut(s)	195, 286
HpyF3I	CTNAG	2 cut(s)	123, 132
Hsp92II	CATG	1 cut(s)	173
Ksp22I	TGATCA	1 cut(s)	166
Kzo9I	GATC	1 cut(s)	166
LpnPI	CCDG	7 cut(s)	21, 97, 135, 169, 177, 237, 255
Lsp1109I	GCAGC	1 cut(s)	239
LweI	GCATC	1 cut(s)	193
MaeI	CTAG	1 cut(s)	41
MaeIII	GTNAC	1 cut(s)	97
MalI	GATC	1 cut(s)	168
MboI	GATC	1 cut(s)	166
MboII	GAAGA	2 cut(s)	68, 131
MhlI	GDGCHC	1 cut(s)	122
MluCI	AATT	4 cut(s)	18, 78, 91, 219
MnlI	CCTC	3 cut(s)	4, 19, 27
MseI	TTAA	1 cut(s)	21
NdeII	GATC	1 cut(s)	166
NlaIII	CATG	1 cut(s)	173
PfeI	GAWTC	2 cut(s)	4, 136
PkrI	GCNGC	1 cut(s)	229
PsiI	TTATAA	1 cut(s)	301
PstI	CTGCAG	1 cut(s)	288
PstNI	CAGNNNCTG	1 cut(s)	101
SaqAI	TTAA	1 cut(s)	21
SatI	GCNGC	1 cut(s)	228
Sau3AI	GATC	1 cut(s)	166
SduI	GDGCHC	1 cut(s)	122
SetI	ASST	3 cut(s)	38, 133, 166
SfaNI	GCATC	1 cut(s)	193
SfcI	CTRYAG	2 cut(s)	84, 284
Sse9I	AATT	4 cut(s)	18, 78, 91, 219
SsiI	CCGC	1 cut(s)	239
SspMI	CTAG	1 cut(s)	41
TaaI	ACNGT	2 cut(s)	103, 250
TaqI	TCGA	1 cut(s)	280
TasI	AATT	4 cut(s)	18, 78, 91, 219
TfiI	GAWTC	2 cut(s)	4, 136
Tru1I	TTAA	1 cut(s)	21
Tru9I	TTAA	1 cut(s)	21
TscAI	CASTG	2 cut(s)	188, 293
TseI	GCWGC	1 cut(s)	227
TspDTI	ATGAA	1 cut(s)	17
TspRI	CASTG	2 cut(s)	188, 293
XapI	RAATTY	2 cut(s)	91, 219
XbaI	TCTAGA	1 cut(s)	40
XspI	CTAG	1 cut(s)	41

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