Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0001514

Physical Location & Seq

Genomic Coordinates Forward (+)

8084184 .. 8086066

Gene Structure 1883 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G004080.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1251 bp

ATGGCTAAGATTCCAAGGGAACAATTGGACAGAGGGGTTATATGCTCATCGGCTGGGAACCATGAGCAAGGAGTTGCATTGTCCGCCAAGAAATTGGGTTGCAATGCAGTCATTGCAATGCCTGTAACTACACCAGAAATTAGGTGGCAATCTATTGAGAGATTGGGAGCCACAGTTGTACTTGTACTTATAGGTGATACCTACGATGAGGCTCCAACTTATGCTAAGAAGCGAGCTAAGGAGGAGGGACGGAGCTTCATACCTCCTTTTGATCACCCATATATTATTATGGGTCAGGGAACAGTTGGAATGGAGGTTATGTGTCAAACAAAAGAGCCATTGCATGCAATTTTTGTGCCGGTGGGGGGTGGTGGCCCAATAGCTGGTATTGTTGCATACATTAAGAGGTTGTCTCCAGAGGTAAAGATTATTGGTGTGGAGCCCTCGGATGCGAATGCAATGGCATTATCCTTGCATCACGGAGAGAGAATAATGTTGGACCAAGTTGTAGGTTTTGCAGATGGTGTAGCAGTGGTAGAGGTGGGTGAAGAAACCTTTCGTATATGCAAAGAATTGATAGATGGTGTAGTTCTCGTGAGTCGTGACGCCATCTGTGGTTCAATAAAGGATATGCATGAGGAGACTAGAAGCATTTTAGAACCAGCAGGTGCTCTTGCTCTTGCTGGAGCTGAAGCATACTGCAAGTATTATGGTCTTAAAGGAGAAAATGTTGTTGCAATTACCAGTGGTGCAAATATGAACTTTGATAAACTGAGAGTGGTGACTGAACTTGCAAATGTTGGTCGGCAACAAGGGGCTGTACTCGCAACAGTTATGCCAGAGGTGCCTGGGAGCTTTAAACATTACTGTGAGCTGGTCGGCCCAATGAATATTAGTGAATTCAAATACAGATATAACTCTGATAAAAAGGCTGTCGTACTGTACAGTGTTGGTGTGCACACAGCTTCTGAACTTGAAGCAATGCAAGAGCGCATGGAGTCTTCTCAACTCAAAACGAGCAATCTCACGAAAAGTGACTTGGTTCTTTGTCGCCTTGTCTTCCCAGAAAGGCCTGGTGCTTTGATGAAGTTCTTGGACACCTTTAGTCCACGTTGGAATATTAGTTTGTTCCACTACCGCGGACAGGTTTCCAAGAGCGAGATTGATGAGTTCCATTCTCGTGCCCATTCACTTGGGTATGACTATGTAGTTGTGACCAATGATACAGACTTCGAGCTTTTGATGCATTGA

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

416

Amino Acids

45.57

Weight (kDa)

5.79

Isoelectric Point (pI)

40.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PALP	PF00291	8 - 250	3.4e-56	Pyridoxal-phosphate dependent enzyme
Thr_dehydrat_C	PF00585	263 - 348	2.9e-19	C-terminal regulatory domain of Threonine dehydratase
Thr_dehydrat_C	PF00585	352 - 382	4.4e-09	C-terminal regulatory domain of Threonine dehydratase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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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)
AarI	CACCTGC	1 cut(s)	656
Acc36I	ACCTGC	1 cut(s)	656
AccB1I	GGYRCC	1 cut(s)	844
AccB7I	CCANNNNNTGG	1 cut(s)	383
AccII	CGCG	1 cut(s)	1140
AciI	CCGC	3 cut(s)	84, 1138, 1140
AcsI	RAATTY	1 cut(s)	899
AcuI	CTGAAG	1 cut(s)	711
AcyI	GRCGYC	1 cut(s)	606
AfaI	GTAC	5 cut(s)	180, 186, 822, 939, 944
AfiI	CCNNNNNNNGG	3 cut(s)	365, 383, 1144
AgsI	TTSAA	3 cut(s)	621, 904, 977
AjnI	CCWGG	2 cut(s)	847, 1072
AjuI	GAANNNNNNNTTGG	2 cut(s)	1022, 1054
AluBI	AGCT	8 cut(s)	236, 255, 383, 689, 855, 874, 965, 1237
AluI	AGCT	8 cut(s)	236, 255, 383, 689, 855, 874, 965, 1237
Alw21I	GWGCWC	2 cut(s)	673, 960
Alw26I	GTCTC	2 cut(s)	417, 635
Alw44I	GTGCAC	1 cut(s)	956
AlwNI	CAGNNNCTG	1 cut(s)	968
AoxI	GGCC	3 cut(s)	373, 880, 1070
ApaLI	GTGCAC	1 cut(s)	956
ApoI	RAATTY	1 cut(s)	899
Asp700I	GAANNNNTTC	1 cut(s)	555
AspLEI	GCGC	1 cut(s)	993
AspS9I	GGNCC	3 cut(s)	374, 499, 881
AsuHPI	GGTGA	4 cut(s)	206, 266, 557, 793
AvaII	GGWCC	1 cut(s)	499
BaeGI	GKGCMC	2 cut(s)	960, 1186
BanI	GGYRCC	1 cut(s)	844
BanII	GRGCYC	1 cut(s)	444
BauI	CACGAG	2 cut(s)	593, 1179
BbsI	GAAGAC	2 cut(s)	993, 1051
Bbv12I	GWGCWC	2 cut(s)	673, 960
BccI	CCATC	3 cut(s)	515, 575, 617
BciT130I	CCWGG	2 cut(s)	849, 1074
BclI	TGATCA	1 cut(s)	271
BcoDI	GTCTC	2 cut(s)	417, 635
BfaI	CTAG	1 cut(s)	645
BfuAI	ACCTGC	1 cut(s)	656
Bme1390I	CCNGG	2 cut(s)	849, 1074
Bme18I	GGWCC	1 cut(s)	499
BmgT120I	GGNCC	3 cut(s)	374, 499, 881
BmiI	GGNNCC	5 cut(s)	59, 169, 213, 441, 846
BmrFI	CCNGG	2 cut(s)	849, 1074
BmsI	GCATC	3 cut(s)	439, 484, 1233
BpiI	GAAGAC	2 cut(s)	993, 1051
BplI	GAGNNNNNCTC	2 cut(s)	397, 429
BpmI	CTGGAG	2 cut(s)	399, 705
Bpu10I	CCTNAGC	1 cut(s)	237
BsaHI	GRCGYC	1 cut(s)	606
BsaJI	CCNNGG	4 cut(s)	14, 444, 848, 1138
BsaXI	ACNNNNNCTCC	6 cut(s)	159, 189, 305, 335, 714, 744
Bsc4I	CCNNNNNNNGG	3 cut(s)	365, 383, 1144
Bse118I	RCCGGY	1 cut(s)	358
Bse1I	ACTGG	1 cut(s)	744
Bse3DI	GCAATG	6 cut(s)	109, 111, 123, 338, 465, 987
BseBI	CCWGG	2 cut(s)	849, 1074
BseDI	CCNNGG	4 cut(s)	14, 444, 848, 1138
BseGI	GGATG	1 cut(s)	454
BseLI	CCNNNNNNNGG	3 cut(s)	365, 383, 1144
BseMI	GCAATG	6 cut(s)	109, 111, 123, 338, 465, 987
BseMII	CTCAG	1 cut(s)	764
BseNI	ACTGG	1 cut(s)	744
BseRI	GAGGAG	2 cut(s)	257, 653
BseSI	GKGCMC	2 cut(s)	960, 1186
BseYI	CCCAGC	1 cut(s)	53
Bsh1236I	CGCG	1 cut(s)	1140
BshFI	GGCC	3 cut(s)	375, 882, 1072
BshNI	GGYRCC	1 cut(s)	844
BsiHKAI	GWGCWC	2 cut(s)	673, 960
BsiSI	CCGG	1 cut(s)	359
BslFI	GGGAC	1 cut(s)	261
BslI	CCNNNNNNNGG	3 cut(s)	365, 383, 1144
BsmAI	GTCTC	2 cut(s)	417, 635
BsmFI	GGGAC	1 cut(s)	261
BsmI	GAATGC	1 cut(s)	460
BsnI	GGCC	3 cut(s)	375, 882, 1072
Bsp1286I	GDGCHC	4 cut(s)	444, 673, 960, 1186
Bsp1407I	TGTACA	1 cut(s)	942
Bsp143I	GATC	1 cut(s)	271
BspACI	CCGC	3 cut(s)	84, 1138, 1140
BspANI	GGCC	3 cut(s)	375, 882, 1072
BspCNI	CTCAG	1 cut(s)	765
BspFNI	CGCG	1 cut(s)	1140
BspLI	GGNNCC	5 cut(s)	59, 169, 213, 441, 846
BspMI	ACCTGC	1 cut(s)	656
BspT107I	GGYRCC	1 cut(s)	844
BsrDI	GCAATG	6 cut(s)	109, 111, 123, 338, 465, 987
BsrFI	RCCGGY	1 cut(s)	358
BsrGI	TGTACA	1 cut(s)	942
BsrI	ACTGG	1 cut(s)	744
BssAI	RCCGGY	1 cut(s)	358
BssECI	CCNNGG	4 cut(s)	14, 444, 848, 1138
BssMI	GATC	1 cut(s)	271
BssNI	GRCGYC	1 cut(s)	606
BssSI	CACGAG	2 cut(s)	593, 1179
BssT1I	CCWWGG	1 cut(s)	14
Bst2BI	CACGAG	2 cut(s)	593, 1179
Bst2UI	CCWGG	2 cut(s)	849, 1074
Bst4CI	ACNGT	6 cut(s)	175, 304, 832, 869, 942, 947
BstACI	GRCGYC	1 cut(s)	606
BstAPI	GCANNNNNTGC	1 cut(s)	113
BstAUI	TGTACA	1 cut(s)	942
BstC8I	GCNNGC	2 cut(s)	234, 345
BstDEI	CTNAG	4 cut(s)	6, 225, 237, 773
BstDSI	CCRYGG	1 cut(s)	1138
BstF5I	GGATG	1 cut(s)	454
BstFNI	CGCG	1 cut(s)	1140
BstHHI	GCGC	1 cut(s)	993
BstKTI	GATC	1 cut(s)	274
BstMAI	GTCTC	2 cut(s)	417, 635
BstMBI	GATC	1 cut(s)	271
BstMWI	GCNNNNNNNGC	5 cut(s)	83, 113, 824, 844, 1243
BstNI	CCWGG	2 cut(s)	849, 1074
BstNSI	RCATGY	1 cut(s)	347
BstSCI	CCNGG	2 cut(s)	847, 1072
BstSLI	GKGCMC	2 cut(s)	960, 1186
BstUI	CGCG	1 cut(s)	1140
BstV2I	GAAGAC	2 cut(s)	993, 1051
BstXI	CCANNNNNNTGG	2 cut(s)	94, 1193
BsuRI	GGCC	3 cut(s)	375, 882, 1072
BtgI	CCRYGG	1 cut(s)	1138
BtsCI	GGATG	1 cut(s)	454
BtsI	GCAGTG	1 cut(s)	537
BtsIMutI	CAGTG	3 cut(s)	537, 751, 952
BveI	ACCTGC	1 cut(s)	656
Cac8I	GCNNGC	2 cut(s)	234, 345
CaiI	CAGNNNCTG	1 cut(s)	968
CfoI	GCGC	1 cut(s)	993
Cfr10I	RCCGGY	1 cut(s)	358
Cfr13I	GGNCC	3 cut(s)	374, 499, 881
Cfr42I	CCGCGG	1 cut(s)	1141
CseI	GACGC	1 cut(s)	614
Csp6I	GTAC	5 cut(s)	179, 185, 821, 938, 943
CviAII	CATG	4 cut(s)	62, 344, 635, 994
CviQI	GTAC	5 cut(s)	179, 185, 821, 938, 943
DdeI	CTNAG	4 cut(s)	6, 225, 237, 773
DpnI	GATC	1 cut(s)	273
DpnII	GATC	1 cut(s)	271
DraI	TTTAAA	1 cut(s)	859
EciI	GGCGGA	1 cut(s)	73
Eco130I	CCWWGG	1 cut(s)	14
Eco147I	AGGCCT	1 cut(s)	1072
Eco24I	GRGCYC	1 cut(s)	444
Eco47I	GGWCC	1 cut(s)	499
Eco57I	CTGAAG	1 cut(s)	711
EcoRI	GAATTC	1 cut(s)	899
EcoRII	CCWGG	2 cut(s)	847, 1072
EcoT14I	CCWWGG	1 cut(s)	14
EcoT22I	ATGCAT	2 cut(s)	636, 1248
EcoT38I	GRGCYC	1 cut(s)	444
ErhI	CCWWGG	1 cut(s)	14
FaeI	CATG	4 cut(s)	65, 347, 638, 997
FaqI	GGGAC	1 cut(s)	261
FatI	CATG	4 cut(s)	61, 343, 634, 993
FbaI	TGATCA	1 cut(s)	271
FokI	GGATG	1 cut(s)	461
FriOI	GRGCYC	1 cut(s)	444
FspBI	CTAG	1 cut(s)	645
GlaI	GCGC	1 cut(s)	992
GsaI	CCCAGC	1 cut(s)	57
GsuI	CTGGAG	2 cut(s)	399, 705
HaeIII	GGCC	3 cut(s)	375, 882, 1072
HapII	CCGG	1 cut(s)	359
HgaI	GACGC	1 cut(s)	614
HhaI	GCGC	1 cut(s)	993
Hin1I	GRCGYC	1 cut(s)	606
Hin1II	CATG	4 cut(s)	65, 347, 638, 997
Hin6I	GCGC	1 cut(s)	991
HinP1I	GCGC	1 cut(s)	991
HinfI	GANTC	3 cut(s)	10, 598, 998
HpaII	CCGG	1 cut(s)	359
HphI	GGTGA	4 cut(s)	206, 266, 557, 793
Hpy166II	GTNNAC	2 cut(s)	958, 1109
Hpy188I	TCNGA	3 cut(s)	448, 922, 970
Hpy188III	TCNNGA	4 cut(s)	416, 595, 602, 1027
Hpy8I	GTNNAC	2 cut(s)	958, 1109
HpyCH4III	ACNGT	6 cut(s)	175, 304, 832, 869, 942, 947
HpyCH4IV	ACGT	1 cut(s)	1111
HpyF10VI	GCNNNNNNNGC	5 cut(s)	83, 113, 824, 844, 1243
HpyF3I	CTNAG	4 cut(s)	6, 225, 237, 773
HpySE526I	ACGT	1 cut(s)	1111
Hsp92I	GRCGYC	1 cut(s)	606
Hsp92II	CATG	4 cut(s)	65, 347, 638, 997
HspAI	GCGC	1 cut(s)	991
Ksp22I	TGATCA	1 cut(s)	271
KspI	CCGCGG	1 cut(s)	1141
Kzo9I	GATC	1 cut(s)	271
LmnI	GCTCC	6 cut(s)	167, 217, 252, 439, 686, 852
LweI	GCATC	3 cut(s)	439, 484, 1233
MaeI	CTAG	1 cut(s)	645
MaeII	ACGT	1 cut(s)	1111
MaeIII	GTNAC	5 cut(s)	124, 602, 781, 1034, 1213
MalI	GATC	1 cut(s)	273
MboI	GATC	1 cut(s)	271
MboII	GAAGA	3 cut(s)	560, 993, 1051
MfeI	CAATTG	1 cut(s)	23
MhlI	GDGCHC	4 cut(s)	444, 673, 960, 1186
MluCI	AATT	7 cut(s)	23, 92, 138, 348, 572, 738, 899
MlyI	GAGTC	2 cut(s)	607, 1007
MmeI	TCCRAC	4 cut(s)	239, 286, 477, 1094
Mph1103I	ATGCAT	2 cut(s)	636, 1248
MroXI	GAANNNNTTC	1 cut(s)	555
MseI	TTAA	3 cut(s)	402, 717, 858
MslI	CAYNNNNRTG	3 cut(s)	116, 867, 1179
MspA1I	CMGCKG	1 cut(s)	1140
MspI	CCGG	1 cut(s)	359
MspR9I	CCNGG	2 cut(s)	849, 1074
MunI	CAATTG	1 cut(s)	23
Mva1269I	GAATGC	1 cut(s)	460
MvaI	CCWGG	2 cut(s)	849, 1074
MvnI	CGCG	1 cut(s)	1140
MwoI	GCNNNNNNNGC	5 cut(s)	83, 113, 824, 844, 1243
NdeII	GATC	1 cut(s)	271
NlaIII	CATG	4 cut(s)	65, 347, 638, 997
NlaIV	GGNNCC	5 cut(s)	59, 169, 213, 441, 846
NmuCI	GTSAC	4 cut(s)	602, 781, 1034, 1213
NsiI	ATGCAT	2 cut(s)	636, 1248
NspI	RCATGY	1 cut(s)	347
PaeI	GCATGC	1 cut(s)	347
PaqCI	CACCTGC	1 cut(s)	656
PceI	AGGCCT	1 cut(s)	1072
PctI	GAATGC	1 cut(s)	460
PdmI	GAANNNNTTC	1 cut(s)	555
PfeI	GAWTC	1 cut(s)	10
PflMI	CCANNNNNTGG	1 cut(s)	383
PleI	GAGTC	2 cut(s)	606, 1006
PpsI	GAGTC	2 cut(s)	606, 1006
Psp6I	CCWGG	2 cut(s)	847, 1072
PspFI	CCCAGC	1 cut(s)	53
PspGI	CCWGG	2 cut(s)	847, 1072
PspN4I	GGNNCC	5 cut(s)	59, 169, 213, 441, 846
PspPI	GGNCC	3 cut(s)	374, 499, 881
PstNI	CAGNNNCTG	1 cut(s)	968
RsaI	GTAC	5 cut(s)	180, 186, 822, 939, 944
RsaNI	GTAC	5 cut(s)	179, 185, 821, 938, 943
RseI	CAYNNNNRTG	3 cut(s)	116, 867, 1179
SacII	CCGCGG	1 cut(s)	1141
SaqAI	TTAA	3 cut(s)	402, 717, 858
Sau3AI	GATC	1 cut(s)	271
Sau96I	GGNCC	3 cut(s)	374, 499, 881
SchI	GAGTC	2 cut(s)	607, 1007
ScrFI	CCNGG	2 cut(s)	849, 1074
SduI	GDGCHC	4 cut(s)	444, 673, 960, 1186
SfaNI	GCATC	3 cut(s)	439, 484, 1233
Sfr303I	CCGCGG	1 cut(s)	1141
SgrBI	CCGCGG	1 cut(s)	1141
SinI	GGWCC	1 cut(s)	499
SmiMI	CAYNNNNRTG	3 cut(s)	116, 867, 1179
SphI	GCATGC	1 cut(s)	347
Sse9I	AATT	7 cut(s)	23, 92, 138, 348, 572, 738, 899
SseBI	AGGCCT	1 cut(s)	1072
SsiI	CCGC	3 cut(s)	84, 1138, 1140
SspI	AATATT	2 cut(s)	892, 1120
SspMI	CTAG	1 cut(s)	645
StuI	AGGCCT	1 cut(s)	1072
StyD4I	CCNGG	2 cut(s)	847, 1072
StyI	CCWWGG	1 cut(s)	14
TaaI	ACNGT	6 cut(s)	175, 304, 832, 869, 942, 947
TaiI	ACGT	1 cut(s)	1114
TaqI	TCGA	1 cut(s)	1233
TasI	AATT	7 cut(s)	23, 92, 138, 348, 572, 738, 899
TatI	WGTACW	4 cut(s)	178, 184, 820, 942
TfiI	GAWTC	1 cut(s)	10
Tru1I	TTAA	3 cut(s)	402, 717, 858
Tru9I	TTAA	3 cut(s)	402, 717, 858
TscAI	CASTG	3 cut(s)	537, 751, 952
TseFI	GTSAC	4 cut(s)	602, 781, 1034, 1213
Tsp45I	GTSAC	4 cut(s)	602, 781, 1034, 1213
TspDTI	ATGAA	4 cut(s)	247, 773, 902, 1100
TspGWI	ACGGA	2 cut(s)	265, 495
TspRI	CASTG	3 cut(s)	537, 751, 952
Van91I	CCANNNNNTGG	1 cut(s)	383
VneI	GTGCAC	1 cut(s)	956
VpaK11BI	GGWCC	1 cut(s)	499
XapI	RAATTY	1 cut(s)	899
XceI	RCATGY	1 cut(s)	347
XcmI	CCANNNNNNNNNTGG	1 cut(s)	141
XmnI	GAANNNNTTC	1 cut(s)	555
XspI	CTAG	1 cut(s)	645
Zsp2I	ATGCAT	2 cut(s)	636, 1248

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