Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0001929

Physical Location & Seq

Genomic Coordinates Reverse (-)

12851795 .. 12853845

Gene Structure 2051 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT4G25000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1272 bp

ATGACATCTCTCCATACGTTACTCTTCTCTTCTCTTCTTTTCTTCATCGTCTTTCCAACCTTCACGTTTTCCTCCACCTTATTGTTTCAGAGTTTCAATTGGGAGTCATGGAAGAAAGAAGGAGGATTCTACAATTCTCTCCACAACTCCATTGACGACATAGCCAACGCTGGAATCACTCATCTTTGGCTTCCTCCTCCTTCTCAATCCGTTGCTCCTGAAGGTTACTTACCGGGAAAGCTATACGATCTAAACAGCTCCAAATACGGTTCAGAGGCGGAACTGAAATCGTTAATCAAAGCGTTGAATCAAAAAGGAATAAAAGCTTTGGCTGATATAGTGATTAACCACAGAACAGCTGAGAGGAAAGACGATAAATGTGGATACTGTTATTTCGAAGGTGGGACTTCCGATGATCGTCTTGATTGGGATCCTTCCTTTGTCTGCCGCAATGACCCTAAATTTCCCGGTACCGGAAACCTCGACACCGGAGGAGATTTTGATGGAGCGCCCGACATCGACCACCTTAACCCTAGAGTTCAGAAAGAGTTGTCCGAATGGATGAATTGGCTTAAAACTGAAATCGGATTCCATGGTTGGAGATTTGATTATGTTCGAGGTTATGCATCTTCCATCACCAAATTATACGTTCAGAATACATCACCGGATTTTGCGGTGGGTGAGAAATGGGACGATATGAAGTACGGAGGAGACGGGAAACTAGACTATGATCAGAACGAGCATCGGTCGGGTCTCAAACAGTGGATCGAGGAAGCGGGTGGTGGTGTGTTGACAGCTTTTGATTTCACCACCAAAGGGATCTTACAGTCTGCTGTCAAAGGTGAGCTTTGGAGACTAAAGGACTCGCAGGGAAAACCGCCTGGTATGATAGGAATCATGCCCGGAAACGCTGTCACATTCATAGATAACCATGATACATTCAGAACGTGGGTTTTCCCTTCTGATAAAGTCTTGCTTGGATACGTTTATATACTTACTCATCCAGGAACTCCTTGCATTTTTTATAATCATTACATAGAATGGGGACTAAAAGAGAGCATCTCAAAGCTGGTGGCTATCAGGAACAAAAATGGGATTGGTAGCACAAGCTCTGTAACGATAAAAGCGGCAGAGGCGGATCTCTACTTGGCTATGATTGATGATAAAGTTATCATGAAGATTGGACCAAAGCAAGATGTGGGAACACTTGTTCCTTCTAATTTTGCTTTAGCTTATTCAGGCCTTGACTTTGCTGTCTGGGAGAAGAAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004553 GO:0004556 GO:0005575 GO:0005576 GO:0008150 GO:0009719 GO:0009725 GO:0009737 GO:0009739 GO:0010033 GO:0016160 GO:0016787 GO:0016798 GO:0033993 GO:0042221 GO:0048046 GO:0050896 GO:0097305 GO:1901700

KEGG Pathways

Metabolic & Signaling

ko00500 ko01100 ko04973 map00500 map01100 map04973

Pfam Domains

Protein Families

Alpha-amyl_C2 Alpha-amylase

Protein Analysis

423

Amino Acids

47.38

Weight (kDa)

5.62

Isoelectric Point (pI)

30.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Alpha-amylase	PF00128	42 - 121	5.2e-07	Alpha amylase, catalytic domain
Alpha-amyl_C2	PF07821	363 - 421	7.6e-21	Alpha-amylase C-terminal beta-sheet domain

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: OG0001929)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G25000
fragaria_vesca	FvH4_2g06030 FvH4_2g06030 FvH4_2g06030 FvH4_2g06030 FvH4_2g06030 FvH4_2g06030 FvH4_2g06030 FvH4_2g06030 FvH4_2g06030
malus_domestica	MD00G1035200.v1.1 MD05G1081100.v1.1 MD05G1081200.v1.1
prunus_persica	Prupe.8G125500_v2.0.a1
pyrus_communis	pycom05g07460 pycom10g07850
rosa_chinensis	RchiOBHm_Chr6g0257251 RchiOBHm_Chr6g0257281 RchiOBHm_Chr6g0257311
rosa_laevigata	RLG00000014683 RLG00000014684 RLG00000014685 RLG00000014687
rosa_multiflora	Rmu_sc0000820.1_g000005 Rmu_sc0002648.1_g000009 Rmu_sc0008660.1_g000002
rosa_roxburghii	Rroxscaffold_7G00208570 Rroxscaffold_7G00208600 Rroxscaffold_7G00208610
rosa_rugosa	Rorug04G0263800 Rorug05G0573700 Rorug05G0573800 Rorug05G0574000
rosa_samantha	Rh6AG090900 Rh6AG091400 Rh6AG091700 Rh6BG082600 Rh6BG082700 Rh6CG078700 Rh6CG079000 Rh6CG079200 Rh6DG074500 Rh6DG074800
rosa_wichuraiana	Rw6G007930 Rw6G007940 Rw6G007950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1026
AasI	GACNNNNNNGTC	1 cut(s)	1253
Acc65I	GGTACC	1 cut(s)	470
AccB1I	GGYRCC	1 cut(s)	470
AciI	CCGC	7 cut(s)	278, 448, 674, 776, 878, 1127, 1136
AclWI	GGATC	5 cut(s)	425, 438, 773, 827, 1146
AcsI	RAATTY	1 cut(s)	461
AcuI	CTGAAG	1 cut(s)	240
AfaI	GTAC	2 cut(s)	472, 704
AfiI	CCNNNNNNNGG	2 cut(s)	473, 816
AgsI	TTSAA	2 cut(s)	97, 307
AjnI	CCWGG	2 cut(s)	880, 1003
AloI	GAACNNNNNNTCC	4 cut(s)	1194, 1195, 1226, 1227
AluBI	AGCT	9 cut(s)	241, 258, 326, 359, 797, 847, 1069, 1110, 1232
AluI	AGCT	9 cut(s)	241, 258, 326, 359, 797, 847, 1069, 1110, 1232
Alw26I	GTCTC	3 cut(s)	705, 758, 847
AlwI	GGATC	5 cut(s)	425, 438, 773, 827, 1146
AoxI	GGCC	1 cut(s)	1240
ApoI	RAATTY	1 cut(s)	461
Asp718I	GGTACC	1 cut(s)	470
AspLEI	GCGC	1 cut(s)	511
AspS9I	GGNCC	1 cut(s)	1184
AsuC2I	CCSGG	3 cut(s)	234, 468, 903
AsuHPI	GGTGA	5 cut(s)	628, 654, 692, 799, 854
AsuII	TTCGAA	1 cut(s)	396
AvaII	GGWCC	1 cut(s)	1184
BamHI	GGATCC	1 cut(s)	430
BanI	GGYRCC	1 cut(s)	470
BarI	GAAGNNNNNNTAC	2 cut(s)	213, 245
BccI	CCATC	2 cut(s)	497, 641
BciT130I	CCWGG	2 cut(s)	882, 1005
BciVI	GTATCC	2 cut(s)	377, 974
BclI	TGATCA	1 cut(s)	730
BcnI	CCSGG	3 cut(s)	234, 468, 903
BcoDI	GTCTC	3 cut(s)	705, 758, 847
BfaI	CTAG	2 cut(s)	534, 722
BfoI	RGCGCY	1 cut(s)	512
BfuI	GTATCC	2 cut(s)	377, 974
BisI	GCNGC	2 cut(s)	448, 1128
BlsI	GCNGC	2 cut(s)	449, 1129
Bme1390I	CCNGG	5 cut(s)	234, 468, 882, 903, 1005
Bme18I	GGWCC	1 cut(s)	1184
BmgT120I	GGNCC	1 cut(s)	1184
BmiI	GGNNCC	2 cut(s)	432, 472
BmrFI	CCNGG	5 cut(s)	234, 468, 882, 903, 1005
BmsI	GCATC	3 cut(s)	635, 751, 1068
BplI	GAGNNNNNCTC	2 cut(s)	1046, 1078
Bpu14I	TTCGAA	1 cut(s)	396
BpuMI	CCSGG	3 cut(s)	234, 468, 903
BsaBI	GATNNNNATC	2 cut(s)	429, 893
BsaI	GGTCTC	1 cut(s)	758
BsaJI	CCNNGG	1 cut(s)	592
BsaWI	WCCGGW	3 cut(s)	473, 488, 664
BsaXI	ACNNNNNCTCC	1 cut(s)	1253
Bsc4I	CCNNNNNNNGG	2 cut(s)	473, 816
Bse3DI	GCAATG	1 cut(s)	457
Bse8I	GATNNNNATC	2 cut(s)	429, 893
BseBI	CCWGG	2 cut(s)	882, 1005
BseDI	CCNNGG	1 cut(s)	592
BseGI	GGATG	2 cut(s)	567, 1000
BseJI	GATNNNNATC	2 cut(s)	429, 893
BseLI	CCNNNNNNNGG	2 cut(s)	473, 816
BseMI	GCAATG	1 cut(s)	457
BseMII	CTCAG	1 cut(s)	351
BseRI	GAGGAG	3 cut(s)	186, 507, 723
Bsh1285I	CGRYCG	1 cut(s)	749
BshFI	GGCC	1 cut(s)	1242
BshNI	GGYRCC	1 cut(s)	470
BsiEI	CGRYCG	1 cut(s)	749
BsiSI	CCGG	6 cut(s)	233, 468, 474, 489, 665, 903
BslFI	GGGAC	3 cut(s)	418, 704, 1059
BslI	CCNNNNNNNGG	2 cut(s)	473, 816
BsmAI	GTCTC	3 cut(s)	705, 758, 847
BsmBI	CGTCTC	1 cut(s)	705
BsmFI	GGGAC	3 cut(s)	418, 704, 1059
BsnI	GGCC	1 cut(s)	1242
Bso31I	GGTCTC	1 cut(s)	758
Bsp119I	TTCGAA	1 cut(s)	396
Bsp143I	GATC	7 cut(s)	247, 415, 430, 730, 765, 819, 1138
Bsp19I	CCATGG	1 cut(s)	592
BspACI	CCGC	7 cut(s)	278, 448, 674, 776, 878, 1127, 1136
BspANI	GGCC	1 cut(s)	1242
BspCNI	CTCAG	1 cut(s)	352
BspHI	TCATGA	1 cut(s)	1173
BspLI	GGNNCC	2 cut(s)	432, 472
BspPI	GGATC	5 cut(s)	425, 438, 773, 827, 1146
BspT104I	TTCGAA	1 cut(s)	396
BspT107I	GGYRCC	1 cut(s)	470
BspTNI	GGTCTC	1 cut(s)	758
BsrDI	GCAATG	1 cut(s)	457
BssECI	CCNNGG	1 cut(s)	592
BssMI	GATC	7 cut(s)	247, 415, 430, 730, 765, 819, 1138
BssT1I	CCWWGG	1 cut(s)	592
Bst2UI	CCWGG	2 cut(s)	882, 1005
Bst4CI	ACNGT	4 cut(s)	269, 389, 762, 828
Bst6I	CTCTTC	3 cut(s)	29, 34, 39
BstBI	TTCGAA	1 cut(s)	396
BstDEI	CTNAG	1 cut(s)	360
BstDSI	CCRYGG	1 cut(s)	592
BstF5I	GGATG	2 cut(s)	567, 1000
BstH2I	RGCGCY	1 cut(s)	512
BstHHI	GCGC	1 cut(s)	511
BstKTI	GATC	7 cut(s)	250, 418, 433, 733, 768, 822, 1141
BstMAI	GTCTC	3 cut(s)	705, 758, 847
BstMBI	GATC	7 cut(s)	247, 415, 430, 730, 765, 819, 1138
BstMCI	CGRYCG	1 cut(s)	749
BstMWI	GCNNNNNNNGC	1 cut(s)	1133
BstNI	CCWGG	2 cut(s)	882, 1005
BstSCI	CCNGG	5 cut(s)	232, 466, 880, 901, 1003
BstX2I	RGATCY	3 cut(s)	430, 819, 1138
BstYI	RGATCY	3 cut(s)	430, 819, 1138
BsuI	GTATCC	2 cut(s)	377, 974
BsuRI	GGCC	1 cut(s)	1242
BtgI	CCRYGG	1 cut(s)	592
BtsCI	GGATG	2 cut(s)	567, 1000
BtsIMutI	CAGTG	1 cut(s)	767
CciI	TCATGA	1 cut(s)	1173
CfoI	GCGC	1 cut(s)	511
Cfr13I	GGNCC	1 cut(s)	1184
Csp6I	GTAC	2 cut(s)	471, 703
CspCI	CAANNNNNGTGG	2 cut(s)	1053, 1088
CviAII	CATG	5 cut(s)	108, 593, 898, 932, 1174
CviQI	GTAC	2 cut(s)	471, 703
DdeI	CTNAG	1 cut(s)	360
DpnI	GATC	7 cut(s)	249, 417, 432, 732, 767, 821, 1140
DpnII	GATC	7 cut(s)	247, 415, 430, 730, 765, 819, 1138
DrdI	GACNNNNNNGTC	1 cut(s)	1253
DseDI	GACNNNNNNGTC	1 cut(s)	1253
Eam1104I	CTCTTC	3 cut(s)	29, 34, 39
EarI	CTCTTC	3 cut(s)	29, 34, 39
EciI	GGCGGA	2 cut(s)	293, 1151
Eco130I	CCWWGG	1 cut(s)	592
Eco147I	AGGCCT	1 cut(s)	1242
Eco31I	GGTCTC	1 cut(s)	758
Eco47I	GGWCC	1 cut(s)	1184
Eco57I	CTGAAG	1 cut(s)	240
EcoRII	CCWGG	2 cut(s)	880, 1003
EcoT14I	CCWWGG	1 cut(s)	592
EcoT22I	ATGCAT	1 cut(s)	628
ErhI	CCWWGG	1 cut(s)	592
Esp3I	CGTCTC	1 cut(s)	705
FaeI	CATG	5 cut(s)	111, 596, 901, 935, 1177
FalI	AAGNNNNNCTT	4 cut(s)	831, 863, 960, 992
FaqI	GGGAC	3 cut(s)	418, 704, 1059
FatI	CATG	5 cut(s)	107, 592, 897, 931, 1173
FauI	CCCGC	1 cut(s)	769
FbaI	TGATCA	1 cut(s)	730
Fnu4HI	GCNGC	2 cut(s)	448, 1128
FokI	GGATG	2 cut(s)	574, 987
Fsp4HI	GCNGC	2 cut(s)	448, 1128
FspBI	CTAG	2 cut(s)	534, 722
GlaI	GCGC	1 cut(s)	510
GluI	GCNGC	2 cut(s)	448, 1128
HaeII	RGCGCY	1 cut(s)	512
HaeIII	GGCC	1 cut(s)	1242
HapII	CCGG	6 cut(s)	233, 468, 474, 489, 665, 903
HhaI	GCGC	1 cut(s)	511
Hin1II	CATG	5 cut(s)	111, 596, 901, 935, 1177
Hin6I	GCGC	1 cut(s)	509
HinP1I	GCGC	1 cut(s)	509
HincII	GTYRAC	1 cut(s)	792
HindII	GTYRAC	1 cut(s)	792
HindIII	AAGCTT	1 cut(s)	324
HinfI	GANTC	7 cut(s)	104, 126, 174, 307, 588, 863, 894
HpaII	CCGG	6 cut(s)	233, 468, 474, 489, 665, 903
HphI	GGTGA	5 cut(s)	628, 654, 692, 799, 854
Hpy166II	GTNNAC	1 cut(s)	792
Hpy188III	TCNNGA	4 cut(s)	218, 422, 1081, 1174
Hpy8I	GTNNAC	1 cut(s)	792
HpyAV	CCTTC	8 cut(s)	70, 113, 210, 215, 392, 444, 969, 1224
HpyCH4III	ACNGT	4 cut(s)	269, 389, 762, 828
HpyCH4IV	ACGT	5 cut(s)	17, 65, 648, 947, 984
HpyCH4V	TGCA	2 cut(s)	626, 1017
HpyF10VI	GCNNNNNNNGC	1 cut(s)	1133
HpyF3I	CTNAG	1 cut(s)	360
HpySE526I	ACGT	5 cut(s)	17, 65, 648, 947, 984
Hsp92II	CATG	5 cut(s)	111, 596, 901, 935, 1177
HspAI	GCGC	1 cut(s)	509
KpnI	GGTACC	1 cut(s)	474
Ksp22I	TGATCA	1 cut(s)	730
Kzo9I	GATC	7 cut(s)	247, 415, 430, 730, 765, 819, 1138
LmnI	GCTCC	3 cut(s)	220, 263, 506
LweI	GCATC	3 cut(s)	635, 751, 1068
MaeI	CTAG	2 cut(s)	534, 722
MaeII	ACGT	5 cut(s)	17, 65, 648, 947, 984
MaeIII	GTNAC	4 cut(s)	18, 224, 913, 1114
MalI	GATC	7 cut(s)	249, 417, 432, 732, 767, 821, 1140
MboI	GATC	7 cut(s)	247, 415, 430, 730, 765, 819, 1138
MboII	GAAGA	7 cut(s)	16, 21, 26, 34, 124, 621, 1189
MfeI	CAATTG	1 cut(s)	97
MflI	RGATCY	3 cut(s)	430, 819, 1138
MluCI	AATT	6 cut(s)	97, 133, 461, 565, 641, 1219
MlyI	GAGTC	2 cut(s)	113, 857
MmeI	TCCRAC	2 cut(s)	80, 578
Mph1103I	ATGCAT	1 cut(s)	628
MseI	TTAA	4 cut(s)	293, 345, 528, 573
MspA1I	CMGCKG	1 cut(s)	359
MspI	CCGG	6 cut(s)	233, 468, 474, 489, 665, 903
MspR9I	CCNGG	5 cut(s)	234, 468, 882, 903, 1005
MunI	CAATTG	1 cut(s)	97
MvaI	CCWGG	2 cut(s)	882, 1005
MwoI	GCNNNNNNNGC	1 cut(s)	1133
NciI	CCSGG	3 cut(s)	234, 468, 903
NcoI	CCATGG	1 cut(s)	592
NdeII	GATC	7 cut(s)	247, 415, 430, 730, 765, 819, 1138
NlaIII	CATG	5 cut(s)	111, 596, 901, 935, 1177
NlaIV	GGNNCC	2 cut(s)	432, 472
NmuCI	GTSAC	1 cut(s)	913
NsiI	ATGCAT	1 cut(s)	628
NspV	TTCGAA	1 cut(s)	396
PagI	TCATGA	1 cut(s)	1173
PceI	AGGCCT	1 cut(s)	1242
PfeI	GAWTC	5 cut(s)	126, 174, 307, 588, 894
PfoI	TCCNGGA	1 cut(s)	1003
PkrI	GCNGC	2 cut(s)	449, 1129
PleI	GAGTC	2 cut(s)	112, 857
PpsI	GAGTC	2 cut(s)	112, 857
PsiI	TTATAA	1 cut(s)	1026
Psp6I	CCWGG	2 cut(s)	880, 1003
PspGI	CCWGG	2 cut(s)	880, 1003
PspN4I	GGNNCC	2 cut(s)	432, 472
PspPI	GGNCC	1 cut(s)	1184
PsuI	RGATCY	3 cut(s)	430, 819, 1138
PvuII	CAGCTG	1 cut(s)	359
RsaI	GTAC	2 cut(s)	472, 704
RsaNI	GTAC	2 cut(s)	471, 703
SaqAI	TTAA	4 cut(s)	293, 345, 528, 573
SatI	GCNGC	2 cut(s)	448, 1128
Sau3AI	GATC	7 cut(s)	247, 415, 430, 730, 765, 819, 1138
Sau96I	GGNCC	1 cut(s)	1184
SchI	GAGTC	2 cut(s)	113, 857
ScrFI	CCNGG	5 cut(s)	234, 468, 882, 903, 1005
SfaNI	GCATC	3 cut(s)	635, 751, 1068
SfuI	TTCGAA	1 cut(s)	396
SinI	GGWCC	1 cut(s)	1184
Sse9I	AATT	6 cut(s)	97, 133, 461, 565, 641, 1219
SseBI	AGGCCT	1 cut(s)	1242
SsiI	CCGC	7 cut(s)	278, 448, 674, 776, 878, 1127, 1136
SspMI	CTAG	2 cut(s)	534, 722
StuI	AGGCCT	1 cut(s)	1242
StyD4I	CCNGG	5 cut(s)	232, 466, 880, 901, 1003
StyI	CCWWGG	1 cut(s)	592
TaaI	ACNGT	4 cut(s)	269, 389, 762, 828
TaiI	ACGT	5 cut(s)	20, 68, 651, 950, 987
TaqI	TCGA	5 cut(s)	396, 483, 519, 616, 768
TaqII	GACCGA	1 cut(s)	735
TasI	AATT	6 cut(s)	97, 133, 461, 565, 641, 1219
TauI	GCSGC	2 cut(s)	450, 1130
TfiI	GAWTC	5 cut(s)	126, 174, 307, 588, 894
Tru1I	TTAA	4 cut(s)	293, 345, 528, 573
Tru9I	TTAA	4 cut(s)	293, 345, 528, 573
TscAI	CASTG	1 cut(s)	767
TseFI	GTSAC	1 cut(s)	913
Tsp45I	GTSAC	1 cut(s)	913
TspDTI	ATGAA	5 cut(s)	34, 578, 713, 910, 1190
TspGWI	ACGGA	2 cut(s)	199, 720
TspRI	CASTG	1 cut(s)	767
VpaK11BI	GGWCC	1 cut(s)	1184
XapI	RAATTY	1 cut(s)	461
XspI	CTAG	2 cut(s)	534, 722
Zsp2I	ATGCAT	1 cut(s)	628

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