Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0015727

Physical Location & Seq

Genomic Coordinates Forward (+)

51514417 .. 51518219

Gene Structure 3803 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG316700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 459 bp

ATGTCCATCATTAAAGACGTCGGGGTACACGGACTTGTGGTTCCAGATGTTCCATTGGAAGAGACGGACACTCTGAGAAAGGAAGCCTTGAAAAATAATATTGAATTGGTATTACTAACTACACCCACCACTCCAATGGAGCGAATGAAGGCCATTGCTGAAGCTTCCGAAGGATTTTTGTACCTGGTGAGCTCAATTGGAGTTACAGGGGCCCGGGCATCTGTGAATGAACGAGTTCCTGCCCTTTTAAAGGAAATTAAAGAGGCTACATCAAAGCCCGTAGCTGTTGGTTTTGGCATCTCGAAGCCTGAACAAGCTAAACAGGTAGCGGGGTGGGGAGCTGATGGTGTCATTGTTGGTAGCGCAATGGTGAAGCTGTTGGGTGATGCCAAAACTCCCGAGGAAGGGTTGAAGGAACTGGAAATTTTCACCAAGTCTCTGAAATCTGCACTCCTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000162 GO:0003674 GO:0003824 GO:0004834 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006082 GO:0006520 GO:0006568 GO:0006576 GO:0006586 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0008652 GO:0009058 GO:0009072 GO:0009073 GO:0009308 GO:0009309 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009605 GO:0009606 GO:0009607 GO:0009617 GO:0009628 GO:0009629 GO:0009630 GO:0009719 GO:0009725 GO:0009735 GO:0009987 GO:0010033 GO:0016043 GO:0016053 GO:0016829 GO:0016835 GO:0016836 GO:0018130 GO:0019438 GO:0019752 GO:0033036 GO:0033037 GO:0033554 GO:0034641 GO:0042221 GO:0042401 GO:0042430 GO:0042435 GO:0042545 GO:0042742 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044106 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044281 GO:0044283 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045229 GO:0046219 GO:0046394 GO:0046483 GO:0050896 GO:0051179 GO:0051641 GO:0051704 GO:0051707 GO:0051716 GO:0052386 GO:0052482 GO:0052542 GO:0052543 GO:0052544 GO:0052545 GO:0070727 GO:0071554 GO:0071555 GO:0071704 GO:0071840 GO:0098542 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576 GO:1901605 GO:1901607

KEGG Pathways

Metabolic & Signaling

ko00260 ko00400 ko00402 ko01100 ko01110 ko01130 ko01230 map00260 map00400 map00402 map01100 map01110 map01130 map01230

Pfam Domains

Protein Families

Trp_syntA

Protein Analysis

152

Amino Acids

16.11

Weight (kDa)

5.54

Isoelectric Point (pI)

26.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Trp_syntA	PF00290	4 - 150	6.4e-49	Tryptophan synthase alpha chain
His_biosynth	PF00977	68 - 125	6.7e-07	Histidine biosynthesis protein

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: OG0015727)

Species	Orthologous Gene IDs
pyrus_communis	pycom17g24820
rosa_chinensis	RchiOBHm_Chr1g0378511 RchiOBHm_Chr4g0436471
rosa_multiflora	Rmu_sc0000579.1_g000008 Rmu_sc0007627.1_g000012 Rmu_sc0007627.1_g000013 Rmu_sc0008712.1_g000012
rosa_roxburghii	Rroxscaffold_1G00021740
rosa_samantha	Rh1AG026300 Rh1AG430600 Rh1BG388500 Rh1DG047400 Rh1DG419600 Rh3BG116100 Rh4DG351000 Rh6AG316700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	21
AciI	CCGC	1 cut(s)	329
AcsI	RAATTY	1 cut(s)	423
AcuI	CTGAAG	1 cut(s)	180
AcyI	GRCGYC	1 cut(s)	18
AfaI	GTAC	2 cut(s)	27, 182
AfiI	CCNNNNNNNGG	3 cut(s)	250, 404, 405
AgsI	TTSAA	3 cut(s)	91, 104, 412
AjnI	CCWGG	1 cut(s)	183
AloI	GAACNNNNNNTCC	2 cut(s)	24, 56
AluBI	AGCT	6 cut(s)	164, 192, 284, 317, 341, 376
AluI	AGCT	6 cut(s)	164, 192, 284, 317, 341, 376
Alw21I	GWGCWC	1 cut(s)	194
Alw26I	GTCTC	2 cut(s)	56, 441
Ama87I	CYCGRG	2 cut(s)	213, 398
AoxI	GGCC	2 cut(s)	150, 210
ApaI	GGGCCC	1 cut(s)	214
ApoI	RAATTY	1 cut(s)	423
Asp700I	GAANNNNTTC	1 cut(s)	234
AspLEI	GCGC	1 cut(s)	365
AspS9I	GGNCC	2 cut(s)	210, 211
AsuC2I	CCSGG	2 cut(s)	214, 215
AsuHPI	GGTGA	4 cut(s)	199, 382, 395, 421
AvaI	CYCGRG	2 cut(s)	213, 398
BaeGI	GKGCMC	1 cut(s)	214
BanII	GRGCYC	2 cut(s)	194, 214
Bbv12I	GWGCWC	1 cut(s)	194
BccI	CCATC	2 cut(s)	14, 338
BciT130I	CCWGG	1 cut(s)	185
BcnI	CCSGG	2 cut(s)	214, 215
BcoDI	GTCTC	2 cut(s)	56, 441
Bme1390I	CCNGG	3 cut(s)	185, 214, 215
BmeT110I	CYCGRG	2 cut(s)	213, 398
BmgT120I	GGNCC	2 cut(s)	210, 211
BmiI	GGNNCC	3 cut(s)	42, 211, 212
BmrFI	CCNGG	3 cut(s)	185, 214, 215
BmsI	GCATC	3 cut(s)	227, 306, 376
BpuMI	CCSGG	2 cut(s)	214, 215
BsaHI	GRCGYC	1 cut(s)	18
BsaJI	CCNNGG	2 cut(s)	213, 399
Bsc4I	CCNNNNNNNGG	3 cut(s)	250, 404, 405
Bse1I	ACTGG	1 cut(s)	423
Bse3DI	GCAATG	2 cut(s)	153, 372
BseBI	CCWGG	1 cut(s)	185
BseDI	CCNNGG	2 cut(s)	213, 399
BseLI	CCNNNNNNNGG	3 cut(s)	250, 404, 405
BseMI	GCAATG	2 cut(s)	153, 372
BseMII	CTCAG	1 cut(s)	65
BseNI	ACTGG	1 cut(s)	423
BseSI	GKGCMC	1 cut(s)	214
BsgI	GTGCAG	1 cut(s)	432
BshFI	GGCC	2 cut(s)	152, 212
BsiHKAI	GWGCWC	1 cut(s)	194
BsiHKCI	CYCGRG	2 cut(s)	213, 398
BsiSI	CCGG	1 cut(s)	214
BslI	CCNNNNNNNGG	3 cut(s)	250, 404, 405
BsmAI	GTCTC	2 cut(s)	56, 441
BsmBI	CGTCTC	1 cut(s)	56
BsnI	GGCC	2 cut(s)	152, 212
BsoBI	CYCGRG	2 cut(s)	213, 398
Bsp120I	GGGCCC	1 cut(s)	210
Bsp1286I	GDGCHC	2 cut(s)	194, 214
BspACI	CCGC	1 cut(s)	329
BspANI	GGCC	2 cut(s)	152, 212
BspCNI	CTCAG	1 cut(s)	66
BspLI	GGNNCC	3 cut(s)	42, 211, 212
BsrDI	GCAATG	2 cut(s)	153, 372
BsrI	ACTGG	1 cut(s)	423
BssECI	CCNNGG	2 cut(s)	213, 399
BssNI	GRCGYC	1 cut(s)	18
Bst2UI	CCWGG	1 cut(s)	185
Bst6I	CTCTTC	1 cut(s)	54
BstACI	GRCGYC	1 cut(s)	18
BstDEI	CTNAG	1 cut(s)	74
BstENI	CCTNNNNNAGG	1 cut(s)	248
BstHHI	GCGC	1 cut(s)	365
BstMAI	GTCTC	2 cut(s)	56, 441
BstNI	CCWGG	1 cut(s)	185
BstSCI	CCNGG	3 cut(s)	183, 212, 213
BstSLI	GKGCMC	1 cut(s)	214
BstXI	CCANNNNNNTGG	1 cut(s)	136
BsuRI	GGCC	2 cut(s)	152, 212
CfoI	GCGC	1 cut(s)	365
Cfr13I	GGNCC	2 cut(s)	210, 211
Cfr9I	CCCGGG	1 cut(s)	213
CsiI	ACCWGGT	1 cut(s)	183
Csp6I	GTAC	2 cut(s)	26, 181
CviQI	GTAC	2 cut(s)	26, 181
DdeI	CTNAG	1 cut(s)	74
DraI	TTTAAA	1 cut(s)	249
Eam1104I	CTCTTC	1 cut(s)	54
EarI	CTCTTC	1 cut(s)	54
Ecl136II	GAGCTC	1 cut(s)	192
Eco24I	GRGCYC	2 cut(s)	194, 214
Eco53kI	GAGCTC	1 cut(s)	192
Eco57I	CTGAAG	1 cut(s)	180
Eco88I	CYCGRG	2 cut(s)	213, 398
EcoICRI	GAGCTC	1 cut(s)	192
EcoNI	CCTNNNNNAGG	1 cut(s)	248
EcoO109I	RGGNCCY	1 cut(s)	210
EcoRII	CCWGG	1 cut(s)	183
EcoT38I	GRGCYC	2 cut(s)	194, 214
Esp3I	CGTCTC	1 cut(s)	56
FalI	AAGNNNNNCTT	2 cut(s)	71, 103
FauI	CCCGC	1 cut(s)	322
FriOI	GRGCYC	2 cut(s)	194, 214
GlaI	GCGC	1 cut(s)	364
HaeIII	GGCC	2 cut(s)	152, 212
HapII	CCGG	1 cut(s)	214
HhaI	GCGC	1 cut(s)	365
Hin1I	GRCGYC	1 cut(s)	18
Hin6I	GCGC	1 cut(s)	363
HinP1I	GCGC	1 cut(s)	363
HindIII	AAGCTT	1 cut(s)	162
HpaII	CCGG	1 cut(s)	214
HphI	GGTGA	4 cut(s)	199, 382, 395, 421
Hpy166II	GTNNAC	1 cut(s)	28
Hpy188I	TCNGA	3 cut(s)	75, 169, 441
Hpy188III	TCNNGA	3 cut(s)	44, 301, 398
Hpy8I	GTNNAC	1 cut(s)	28
Hpy99I	CGWCG	1 cut(s)	23
HpyAV	CCTTC	4 cut(s)	142, 164, 398, 406
HpyCH4IV	ACGT	1 cut(s)	18
HpyCH4V	TGCA	1 cut(s)	449
HpyF3I	CTNAG	1 cut(s)	74
HpySE526I	ACGT	1 cut(s)	18
Hsp92I	GRCGYC	1 cut(s)	18
HspAI	GCGC	1 cut(s)	363
LmnI	GCTCC	2 cut(s)	139, 338
LpnPI	CCDG	9 cut(s)	57, 170, 192, 197, 227, 252, 308, 321, 404
LweI	GCATC	3 cut(s)	227, 306, 376
MabI	ACCWGGT	1 cut(s)	183
MaeII	ACGT	1 cut(s)	18
MaeIII	GTNAC	1 cut(s)	202
MboII	GAAGA	1 cut(s)	71
MfeI	CAATTG	1 cut(s)	195
MhlI	GDGCHC	2 cut(s)	194, 214
MluCI	AATT	4 cut(s)	104, 195, 255, 423
MnlI	CCTC	2 cut(s)	256, 394
MroXI	GAANNNNTTC	1 cut(s)	234
MseI	TTAA	3 cut(s)	12, 248, 258
MslI	CAYNNNNRTG	1 cut(s)	134
MspI	CCGG	1 cut(s)	214
MspR9I	CCNGG	3 cut(s)	185, 214, 215
MunI	CAATTG	1 cut(s)	195
MvaI	CCWGG	1 cut(s)	185
NciI	CCSGG	2 cut(s)	214, 215
NlaIV	GGNNCC	3 cut(s)	42, 211, 212
PdmI	GAANNNNTTC	1 cut(s)	234
Psp124BI	GAGCTC	1 cut(s)	194
Psp6I	CCWGG	1 cut(s)	183
PspGI	CCWGG	1 cut(s)	183
PspN4I	GGNNCC	3 cut(s)	42, 211, 212
PspOMI	GGGCCC	1 cut(s)	210
PspPI	GGNCC	2 cut(s)	210, 211
RsaI	GTAC	2 cut(s)	27, 182
RsaNI	GTAC	2 cut(s)	26, 181
RseI	CAYNNNNRTG	1 cut(s)	134
SacI	GAGCTC	1 cut(s)	194
SaqAI	TTAA	3 cut(s)	12, 248, 258
Sau96I	GGNCC	2 cut(s)	210, 211
ScrFI	CCNGG	3 cut(s)	185, 214, 215
SduI	GDGCHC	2 cut(s)	194, 214
SetI	ASST	9 cut(s)	21, 166, 186, 194, 286, 319, 327, 343, 378
SexAI	ACCWGGT	1 cut(s)	183
SfaNI	GCATC	3 cut(s)	227, 306, 376
SmaI	CCCGGG	1 cut(s)	215
SmiMI	CAYNNNNRTG	1 cut(s)	134
SrfI	GCCCGGGC	1 cut(s)	215
Sse9I	AATT	4 cut(s)	104, 195, 255, 423
SsiI	CCGC	1 cut(s)	329
SspI	AATATT	1 cut(s)	100
SstI	GAGCTC	1 cut(s)	194
StyD4I	CCNGG	3 cut(s)	183, 212, 213
TaiI	ACGT	1 cut(s)	21
TaqI	TCGA	1 cut(s)	302
TasI	AATT	4 cut(s)	104, 195, 255, 423
Tru1I	TTAA	3 cut(s)	12, 248, 258
Tru9I	TTAA	3 cut(s)	12, 248, 258
TspDTI	ATGAA	2 cut(s)	161, 243
TspGWI	ACGGA	2 cut(s)	45, 80
TspMI	CCCGGG	1 cut(s)	213
XagI	CCTNNNNNAGG	1 cut(s)	248
XapI	RAATTY	1 cut(s)	423
XcmI	CCANNNNNNNNNTGG	1 cut(s)	133
XmaI	CCCGGG	1 cut(s)	213
XmnI	GAANNNNTTC	1 cut(s)	234
ZraI	GACGTC	1 cut(s)	19

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