Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001514

Physical Location & Seq

Genomic Coordinates Forward (+)

8701979 .. 8702341

Gene Structure 363 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG048400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 363 bp

ATGCAAGAGCGCATGGAGTCTTCTCAACTCAAAACGATCAATCTCACGAAAAGTGACGTGGTTAAAGATCACTTGCGTTGCTTGATGGGGGGCAGAATAAATGTTGAAAATGAGGTTCTTTGTCGCTTTGTCTTCCCAGAAAGGCCTGGTGCTTTGATGAAGTTCTTGGACACCTTTAGTCCACGTTGGAATATTAGTTTGTTCCACTACCGCGGACAGGGTGAAACTGGAGCAAATGTCTTGGTTGGAATCCAAGTTTCCAAGAGCGAGATTGATGAGTTCCATTCTCGTGCCAATTCACTTGGGTATGACTATGTAGTAGTGACCAATGATACAGACTTCGAGCTTTTGATGCATTCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004794 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006082 GO:0006520 GO:0006549 GO:0006807 GO:0008150 GO:0008152 GO:0008652 GO:0009058 GO:0009081 GO:0009082 GO:0009097 GO:0009507 GO:0009536 GO:0009987 GO:0016053 GO:0016829 GO:0016840 GO:0016841 GO:0019752 GO:0042802 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046394 GO:0071704 GO:1901564 GO:1901566 GO:1901576 GO:1901605 GO:1901607

KEGG Pathways

Metabolic & Signaling

ko00260 ko00290 ko01100 ko01110 ko01130 ko01200 ko01230 map00260 map00290 map01100 map01110 map01130 map01200 map01230

Pfam Domains

Protein Families

PALP Thr_dehydrat_C

Protein Analysis

120

Amino Acids

13.76

Weight (kDa)

5.76

Isoelectric Point (pI)

39.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Thr_dehydrat_C	PF00585	30 - 116	1.1e-25	C-terminal regulatory domain of Threonine dehydratase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001514)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10050
fragaria_vesca	FvH4_3g30040 FvH4_6g17350 FvH4_6g17350 FvH4_6g17350
malus_domestica	MD11G1153900.v1.1 MD12G1101800.v1.1 MD14G1095900.v1.1
prunus_persica	Prupe.1G149200_v2.0.a1 Prupe.6G116600_v2.0.a1 Prupe.7G044100_v2.0.a1 Prupe.7G122000_v2.0.a1
pyrus_communis	pycom11g12560 pycom11g12570 pycom12g10020
rosa_chinensis	RchiOBHm_Chr3g0471501 RchiOBHm_Chr4g0394271 RchiOBHm_Chr5g0055901
rosa_laevigata	RLG00000009710 RLG00000024173 RLG00000035019 RLG00000035020
rosa_multiflora	Rmu_co8179734.1_g000001 Rmu_sc0006582.1_g000005 Rmu_sc0006749.1_g000006
rosa_roxburghii	Rroxscaffold_1G00024450 Rroxscaffold_1G00024460 Rroxscaffold_6G00409900
rosa_rugosa	Rorug03G0118100 Rorug03G0118200 Rorug03G0118200 Rorug03G0118200 Rorug03G0368200.1 Rorug05G0295400
rosa_samantha	Rh3AG168100 Rh3BG193600 Rh3CG184100 Rh3DG181900 Rh4AG051200 Rh4BG048200 Rh4BG048400 Rh4CG055000 Rh4DG048100 Rh5AG366800 Rh5BG376900 Rh5CG400200 Rh5DG390400 Rh6BG174900
rosa_wichuraiana	Rw3G015840 Rw4G004080 Rw5G034380

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	213
AciI	CCGC	2 cut(s)	211, 213
AfiI	CCNNNNNNNGG	1 cut(s)	217
AgsI	TTSAA	1 cut(s)	107
AjiI	CACGTC	1 cut(s)	58
AjnI	CCWGG	1 cut(s)	145
AluBI	AGCT	1 cut(s)	346
AluI	AGCT	1 cut(s)	346
AoxI	GGCC	1 cut(s)	143
AspLEI	GCGC	1 cut(s)	12
AsuHPI	GGTGA	1 cut(s)	233
BauI	CACGAG	1 cut(s)	288
BbsI	GAAGAC	2 cut(s)	12, 124
BccI	CCATC	1 cut(s)	79
BciT130I	CCWGG	1 cut(s)	147
Bme1390I	CCNGG	1 cut(s)	147
BmgBI	CACGTC	1 cut(s)	58
BmrFI	CCNGG	1 cut(s)	147
BmsI	GCATC	1 cut(s)	342
BpiI	GAAGAC	2 cut(s)	12, 124
BpmI	CTGGAG	1 cut(s)	249
BsaJI	CCNNGG	1 cut(s)	211
BsaXI	ACNNNNNCTCC	2 cut(s)	222, 252
Bsc4I	CCNNNNNNNGG	1 cut(s)	217
Bse1I	ACTGG	1 cut(s)	232
BseBI	CCWGG	1 cut(s)	147
BseDI	CCNNGG	1 cut(s)	211
BseLI	CCNNNNNNNGG	1 cut(s)	217
BseNI	ACTGG	1 cut(s)	232
Bsh1236I	CGCG	1 cut(s)	213
BshFI	GGCC	1 cut(s)	145
BslI	CCNNNNNNNGG	1 cut(s)	217
BsmI	GAATGC	1 cut(s)	355
BsnI	GGCC	1 cut(s)	145
Bsp143I	GATC	2 cut(s)	36, 67
BspACI	CCGC	2 cut(s)	211, 213
BspANI	GGCC	1 cut(s)	145
BspFNI	CGCG	1 cut(s)	213
BsrI	ACTGG	1 cut(s)	232
BssECI	CCNNGG	1 cut(s)	211
BssMI	GATC	2 cut(s)	36, 67
BssSI	CACGAG	1 cut(s)	288
Bst2BI	CACGAG	1 cut(s)	288
Bst2UI	CCWGG	1 cut(s)	147
BstDSI	CCRYGG	1 cut(s)	211
BstFNI	CGCG	1 cut(s)	213
BstHHI	GCGC	1 cut(s)	12
BstKTI	GATC	2 cut(s)	39, 70
BstMBI	GATC	2 cut(s)	36, 67
BstMWI	GCNNNNNNNGC	1 cut(s)	352
BstNI	CCWGG	1 cut(s)	147
BstSCI	CCNGG	1 cut(s)	145
BstUI	CGCG	1 cut(s)	213
BstV2I	GAAGAC	2 cut(s)	12, 124
BsuRI	GGCC	1 cut(s)	145
BtgI	CCRYGG	1 cut(s)	211
BtrI	CACGTC	1 cut(s)	58
CfoI	GCGC	1 cut(s)	12
Cfr42I	CCGCGG	1 cut(s)	214
CviAII	CATG	1 cut(s)	13
CviJI	RGCY	2 cut(s)	145, 346
CviKI_1	RGCY	2 cut(s)	145, 346
DpnI	GATC	2 cut(s)	38, 69
DpnII	GATC	2 cut(s)	36, 67
Eco147I	AGGCCT	1 cut(s)	145
EcoRII	CCWGG	1 cut(s)	145
EcoT22I	ATGCAT	1 cut(s)	357
FaeI	CATG	1 cut(s)	16
FaiI	YATR	4 cut(s)	14, 309, 315, 361
FatI	CATG	1 cut(s)	12
GlaI	GCGC	1 cut(s)	11
GsuI	CTGGAG	1 cut(s)	249
HaeIII	GGCC	1 cut(s)	145
HhaI	GCGC	1 cut(s)	12
Hin1II	CATG	1 cut(s)	16
Hin6I	GCGC	1 cut(s)	10
HinP1I	GCGC	1 cut(s)	10
HinfI	GANTC	2 cut(s)	17, 249
HphI	GGTGA	1 cut(s)	233
Hpy166II	GTNNAC	1 cut(s)	182
Hpy188III	TCNNGA	1 cut(s)	46
Hpy8I	GTNNAC	1 cut(s)	182
HpyCH4IV	ACGT	2 cut(s)	57, 184
HpyCH4V	TGCA	2 cut(s)	4, 355
HpyF10VI	GCNNNNNNNGC	1 cut(s)	352
HpySE526I	ACGT	2 cut(s)	57, 184
Hsp92II	CATG	1 cut(s)	16
HspAI	GCGC	1 cut(s)	10
KspI	CCGCGG	1 cut(s)	214
Kzo9I	GATC	2 cut(s)	36, 67
LmnI	GCTCC	1 cut(s)	230
LpnPI	CCDG	5 cut(s)	132, 150, 159, 203, 213
LweI	GCATC	1 cut(s)	342
MaeII	ACGT	2 cut(s)	57, 184
MaeIII	GTNAC	2 cut(s)	53, 322
MalI	GATC	2 cut(s)	38, 69
MboI	GATC	2 cut(s)	36, 67
MboII	GAAGA	2 cut(s)	12, 124
MluCI	AATT	1 cut(s)	295
MlyI	GAGTC	1 cut(s)	26
MmeI	TCCRAC	2 cut(s)	167, 226
MnlI	CCTC	1 cut(s)	106
Mph1103I	ATGCAT	1 cut(s)	357
MseI	TTAA	1 cut(s)	63
MslI	CAYNNNNRTG	1 cut(s)	288
MspA1I	CMGCKG	1 cut(s)	213
MspR9I	CCNGG	1 cut(s)	147
Mva1269I	GAATGC	1 cut(s)	355
MvaI	CCWGG	1 cut(s)	147
MvnI	CGCG	1 cut(s)	213
MwoI	GCNNNNNNNGC	1 cut(s)	352
NdeII	GATC	2 cut(s)	36, 67
NlaIII	CATG	1 cut(s)	16
NmuCI	GTSAC	2 cut(s)	53, 322
NsiI	ATGCAT	1 cut(s)	357
PceI	AGGCCT	1 cut(s)	145
PctI	GAATGC	1 cut(s)	355
PfeI	GAWTC	1 cut(s)	249
PleI	GAGTC	1 cut(s)	25
PpsI	GAGTC	1 cut(s)	25
Psp6I	CCWGG	1 cut(s)	145
PspGI	CCWGG	1 cut(s)	145
RseI	CAYNNNNRTG	1 cut(s)	288
SacII	CCGCGG	1 cut(s)	214
SaqAI	TTAA	1 cut(s)	63
Sau3AI	GATC	2 cut(s)	36, 67
SchI	GAGTC	1 cut(s)	26
ScrFI	CCNGG	1 cut(s)	147
SetI	ASST	5 cut(s)	60, 117, 176, 187, 348
SfaNI	GCATC	1 cut(s)	342
Sfr303I	CCGCGG	1 cut(s)	214
SgrBI	CCGCGG	1 cut(s)	214
SmiMI	CAYNNNNRTG	1 cut(s)	288
Sse9I	AATT	1 cut(s)	295
SseBI	AGGCCT	1 cut(s)	145
SsiI	CCGC	2 cut(s)	211, 213
SspI	AATATT	1 cut(s)	193
StuI	AGGCCT	1 cut(s)	145
StyD4I	CCNGG	1 cut(s)	145
TaiI	ACGT	2 cut(s)	60, 187
TaqI	TCGA	1 cut(s)	342
TasI	AATT	1 cut(s)	295
TfiI	GAWTC	1 cut(s)	249
Tru1I	TTAA	1 cut(s)	63
Tru9I	TTAA	1 cut(s)	63
TseFI	GTSAC	2 cut(s)	53, 322
Tsp45I	GTSAC	2 cut(s)	53, 322
TspDTI	ATGAA	2 cut(s)	173, 348
Zsp2I	ATGCAT	1 cut(s)	357

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