Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001514

Physical Location & Seq

Genomic Coordinates Forward (+)

8687162 .. 8691365

Gene Structure 4204 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG048200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 405 bp

ATGGTGCTTTCAGGATCTTTGACAAACATATTGAAGTCAAAAGTGTATGACGTGGCAATTGAATCAACCTTGGAGCTGGCAACCAAGCTATCCGAGCGGTTCGGAGTGAACGTTTGGCTCAAAAGGGAAGATTTGCAGCCGGTGTTTTCGTTCAAGCTTCGTGGAGCTTATAATATGATGGCTAAGATTCCAAGGGAACAATTGGACAGAGGGGTTATATGCTCGTCGGCTGGGAACCATGCGCAAGGAGTTGCATTGTCCGCCAAGAAATTGGGTCGCAATGCAGTCATTGCAATGCCTGTAACTACACCAGAAATTAAGTGGCAATCTGTTGAGAGATTGGGAGCCACAGTTGTACTTATCGGTGATACCTACGATGAGGCTCAAGCTTATGCTAATTGCTAA

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

134

Amino Acids

14.67

Weight (kDa)

8.95

Isoelectric Point (pI)

38.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PALP	PF00291	24 - 133	6.1e-31	Pyridoxal-phosphate dependent enzyme

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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)
AanI	TTATAA	1 cut(s)	171
Acc16I	TGCGCA	1 cut(s)	243
AccBSI	CCGCTC	1 cut(s)	97
AciI	CCGC	2 cut(s)	97, 261
AclI	AACGTT	1 cut(s)	111
AclWI	GGATC	1 cut(s)	22
AfaI	GTAC	1 cut(s)	357
AgsI	TTSAA	3 cut(s)	34, 62, 154
AjiI	CACGTC	1 cut(s)	52
AluBI	AGCT	5 cut(s)	76, 88, 157, 167, 389
AluI	AGCT	5 cut(s)	76, 88, 157, 167, 389
AlwI	GGATC	1 cut(s)	22
ApeKI	GCWGC	1 cut(s)	136
AspLEI	GCGC	1 cut(s)	244
AsuHPI	GGTGA	1 cut(s)	377
BbvI	GCAGC	1 cut(s)	148
BccI	CCATC	1 cut(s)	172
BisI	GCNGC	1 cut(s)	137
BlsI	GCNGC	1 cut(s)	138
BmgBI	CACGTC	1 cut(s)	52
BmiI	GGNNCC	2 cut(s)	236, 346
BpuEI	CTTGAG	1 cut(s)	369
BsaJI	CCNNGG	2 cut(s)	69, 191
BsaXI	ACNNNNNCTCC	4 cut(s)	96, 126, 336, 366
Bse118I	RCCGGY	1 cut(s)	139
Bse3DI	GCAATG	3 cut(s)	286, 288, 300
BseDI	CCNNGG	2 cut(s)	69, 191
BseMI	GCAATG	3 cut(s)	286, 288, 300
BseXI	GCAGC	1 cut(s)	148
BseYI	CCCAGC	1 cut(s)	230
BsiSI	CCGG	1 cut(s)	140
Bsp143I	GATC	1 cut(s)	14
BspACI	CCGC	2 cut(s)	97, 261
BspLI	GGNNCC	2 cut(s)	236, 346
BspPI	GGATC	1 cut(s)	22
BsrBI	CCGCTC	1 cut(s)	97
BsrDI	GCAATG	3 cut(s)	286, 288, 300
BsrFI	RCCGGY	1 cut(s)	139
BssAI	RCCGGY	1 cut(s)	139
BssECI	CCNNGG	2 cut(s)	69, 191
BssMI	GATC	1 cut(s)	14
BssT1I	CCWWGG	2 cut(s)	69, 191
Bst4CI	ACNGT	1 cut(s)	352
BstAPI	GCANNNNNTGC	1 cut(s)	290
BstC8I	GCNNGC	1 cut(s)	78
BstDEI	CTNAG	1 cut(s)	183
BstHHI	GCGC	1 cut(s)	244
BstKTI	GATC	1 cut(s)	17
BstMBI	GATC	1 cut(s)	14
BstMWI	GCNNNNNNNGC	3 cut(s)	94, 260, 290
BstV1I	GCAGC	1 cut(s)	148
BstX2I	RGATCY	1 cut(s)	14
BstXI	CCANNNNNNTGG	1 cut(s)	271
BstYI	RGATCY	1 cut(s)	14
BtrI	CACGTC	1 cut(s)	52
Cac8I	GCNNGC	1 cut(s)	78
CfoI	GCGC	1 cut(s)	244
Cfr10I	RCCGGY	1 cut(s)	139
Csp6I	GTAC	1 cut(s)	356
CspCI	CAANNNNNGTGG	2 cut(s)	142, 177
CviAII	CATG	1 cut(s)	239
CviQI	GTAC	1 cut(s)	356
DdeI	CTNAG	1 cut(s)	183
DpnI	GATC	1 cut(s)	16
DpnII	GATC	1 cut(s)	14
EciI	GGCGGA	1 cut(s)	250
Eco130I	CCWWGG	2 cut(s)	69, 191
EcoT14I	CCWWGG	2 cut(s)	69, 191
ErhI	CCWWGG	2 cut(s)	69, 191
FaeI	CATG	1 cut(s)	242
FaiI	YATR	8 cut(s)	29, 48, 171, 176, 218, 220, 240, 393
FatI	CATG	1 cut(s)	238
Fnu4HI	GCNGC	1 cut(s)	137
Fsp4HI	GCNGC	1 cut(s)	137
FspI	TGCGCA	1 cut(s)	243
GlaI	GCGC	1 cut(s)	243
GluI	GCNGC	1 cut(s)	137
GsaI	CCCAGC	1 cut(s)	234
HapII	CCGG	1 cut(s)	140
HhaI	GCGC	1 cut(s)	244
Hin1II	CATG	1 cut(s)	242
Hin6I	GCGC	1 cut(s)	242
HinP1I	GCGC	1 cut(s)	242
HindIII	AAGCTT	2 cut(s)	155, 387
HinfI	GANTC	2 cut(s)	62, 187
HpaII	CCGG	1 cut(s)	140
HphI	GGTGA	1 cut(s)	377
Hpy166II	GTNNAC	1 cut(s)	109
Hpy188I	TCNGA	2 cut(s)	94, 104
Hpy188III	TCNNGA	1 cut(s)	12
Hpy8I	GTNNAC	1 cut(s)	109
Hpy99I	CGWCG	1 cut(s)	229
HpyCH4III	ACNGT	1 cut(s)	352
HpyCH4IV	ACGT	2 cut(s)	51, 111
HpyCH4V	TGCA	4 cut(s)	136, 254, 284, 293
HpyF10VI	GCNNNNNNNGC	3 cut(s)	94, 260, 290
HpyF3I	CTNAG	1 cut(s)	183
HpySE526I	ACGT	2 cut(s)	51, 111
Hsp92II	CATG	1 cut(s)	242
HspAI	GCGC	1 cut(s)	242
Kzo9I	GATC	1 cut(s)	14
LmnI	GCTCC	3 cut(s)	73, 164, 344
LpnPI	CCDG	5 cut(s)	62, 153, 216, 312, 324
Lsp1109I	GCAGC	1 cut(s)	148
MaeII	ACGT	2 cut(s)	51, 111
MaeIII	GTNAC	1 cut(s)	301
MalI	GATC	1 cut(s)	16
MbiI	CCGCTC	1 cut(s)	97
MboI	GATC	1 cut(s)	14
MboII	GAAGA	1 cut(s)	140
MfeI	CAATTG	2 cut(s)	57, 200
MflI	RGATCY	1 cut(s)	14
MluCI	AATT	5 cut(s)	57, 200, 269, 315, 397
MnlI	CCTC	2 cut(s)	203, 373
MseI	TTAA	1 cut(s)	318
MslI	CAYNNNNRTG	1 cut(s)	293
MspI	CCGG	1 cut(s)	140
MunI	CAATTG	2 cut(s)	57, 200
MwoI	GCNNNNNNNGC	3 cut(s)	94, 260, 290
NdeII	GATC	1 cut(s)	14
NlaIII	CATG	1 cut(s)	242
NlaIV	GGNNCC	2 cut(s)	236, 346
NsbI	TGCGCA	1 cut(s)	243
PcsI	WCGNNNNNNNCGW	1 cut(s)	108
PfeI	GAWTC	2 cut(s)	62, 187
PkrI	GCNGC	1 cut(s)	138
PsiI	TTATAA	1 cut(s)	171
Psp1406I	AACGTT	1 cut(s)	111
PspFI	CCCAGC	1 cut(s)	230
PspN4I	GGNNCC	2 cut(s)	236, 346
PsuI	RGATCY	1 cut(s)	14
RsaI	GTAC	1 cut(s)	357
RsaNI	GTAC	1 cut(s)	356
RseI	CAYNNNNRTG	1 cut(s)	293
SaqAI	TTAA	1 cut(s)	318
SatI	GCNGC	1 cut(s)	137
Sau3AI	GATC	1 cut(s)	14
SetI	ASST	9 cut(s)	54, 71, 78, 90, 114, 159, 169, 374, 391
SmiMI	CAYNNNNRTG	1 cut(s)	293
SmlI	CTYRAG	1 cut(s)	384
SmoI	CTYRAG	1 cut(s)	384
Sse9I	AATT	5 cut(s)	57, 200, 269, 315, 397
SsiI	CCGC	2 cut(s)	97, 261
StyI	CCWWGG	2 cut(s)	69, 191
TaaI	ACNGT	1 cut(s)	352
TaiI	ACGT	2 cut(s)	54, 114
TasI	AATT	5 cut(s)	57, 200, 269, 315, 397
TatI	WGTACW	1 cut(s)	355
TfiI	GAWTC	2 cut(s)	62, 187
Tru1I	TTAA	1 cut(s)	318
Tru9I	TTAA	1 cut(s)	318
TseI	GCWGC	1 cut(s)	136
XcmI	CCANNNNNNNNNTGG	1 cut(s)	318

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