Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr03

Orthogroup ID

OG0008422

Physical Location & Seq

Genomic Coordinates Forward (+)

5856468 .. 5860415

Gene Structure 3948 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD03G1072000.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1407 bp

ATGAACCCACTAACCCTAGTGAAACGCATTCAGAACATCAATTCCAGAGAAGCCCAATTAGGGATTTCAGAGGAGGCATCGTGGCACGCCAAGTACAAAGACTCCGCCTACGTCTACGTCGGCGGCATTCCCTTCGATCTCACCGAAGGCGATCTCCTCGCCGTTTTCGCACAATACGGAGAGATCGTGGATGTGAATCTTGTTCGCGATAAGGCGACTGGGAAATCCAAAGGGTTTGCGTTTGTGGCGTACGAGGACCAGAGGAGCACGATTCTTGCTGTGGATAATTTGAACGGAGCTCAAATTTTGGGGCGGACAATTAGGGTTGATCATGTGACTAAGTACAAGAAGAAGGAGGAGGAAGATGAAGAGGAGGCGCAGAGGAAGAGGGAGGAGCGGGGCGTTTGCCGGGCTTTCCAGAAAGGCGAATGTACACGAGGTGATTCGTGCAAGTTTTCACACGATGAGCAGAGAGCTGCAAACACAGGTTGGGGTGAAAAAGACCCGAAATGGGGGCGTGACAGTTATGAGGGCCCAAAAAGGGGTGATAAAAGATCTAGCACCATTCTGCCAAATCGTGTTCAAGAGCCAAAAGTTCAAGAAGAGTTCAGATCAGGTGATAGAGAATTGGACTCCAGAAGAAAGGGCAACGGGAGGGACTTCGAAAGTCACCCTAAGCGAAGTGGTGGGAGAGAGCAAAAGAGACTGGGAAGACAGGGGGGTGATGATGAAAAGTTTGAGCTTAGATCAAGAGATCATGATAGGGGGGAAGAAAATAGATCAAGAAGACGGAGTGAGGATAATGAATTGGTGCCCAATTCAAGAGAAAATTGTGGCAGGAGAGAAGAACAGAGGTTGAGAAGGCACAATGATGATGAATTTCAGCCAAAGTCAAGAGAAGATTATGATAGAAAGGAAGATAAAAGACCCAGAAGGTGTGTTGATGATGAGGAATTTGAGCCAAAGCTTAAGTCTAGAGAAGATCATGATAGGAGGGGAGATGATAGAAGGGAAAATAAGAGACTAAGAAGGCATAGCGATGATGGTGAAATTGAGCCCAAATCTAAAGATGATCGTGGTAGGAGGGAAGATGATAGTAGGGAAGATAAGGGACTGAGAAGGTATGCTGGTGATGCTGATTTTGATCCAAAATCTAGAGACAATCATGATAGGATGGATGAAAAGAGATTGAGAAGGCACAGTGATTATGAAAATCAGCCGCAGTCTAGAGAAGATTATGATAGGAGGGAGGATCGGAGGTCAAGAAGACGCAATGACGATGAATTTGATCTGAAGTCGAGAGCAGGCAAGGATAAGAGGGAAGGAGAGAGATCGAGAAGGGATGGAGATGATGAGATTCAGCCAAAGTCTAGAGAAGGTCGTCGTAGGAGTGAAAAGGGAGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005686 GO:0006139 GO:0006396 GO:0006397 GO:0006403 GO:0006405 GO:0006406 GO:0006611 GO:0006725 GO:0006807 GO:0006810 GO:0006886 GO:0006913 GO:0008104 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0015031 GO:0015833 GO:0015931 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0030532 GO:0031503 GO:0031974 GO:0031981 GO:0032991 GO:0033036 GO:0034613 GO:0034641 GO:0042886 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045184 GO:0046483 GO:0046907 GO:0050657 GO:0050658 GO:0051028 GO:0051168 GO:0051169 GO:0051179 GO:0051234 GO:0051236 GO:0051641 GO:0051649 GO:0070013 GO:0070274 GO:0070727 GO:0071011 GO:0071013 GO:0071166 GO:0071426 GO:0071427 GO:0071702 GO:0071704 GO:0071705 GO:0090304 GO:0097159 GO:0097525 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1 zf-CCCH

Protein Analysis

469

Amino Acids

55.42

Weight (kDa)

8.56

Isoelectric Point (pI)

80.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_7	PF16367	35 - 95	5.2e-06	RNA recognition motif
RRM_1	PF00076	38 - 108	4.7e-22	RNA recognition motif
zf-CCCH	PF00642	134 - 156	3.9e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf-CCCH_4	PF18044	135 - 155	7.2e-08	CCCH-type zinc finger
zf_CCCH_4	PF18345	136 - 154	3.6e-06	Zinc finger domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008422)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G47120 AT3G47120 AT5G58790
fragaria_vesca	FvH4_3g38440
malus_domestica	MD03G1072000.v1.1 MD11G1076000.v1.1
prunus_persica	Prupe.6G058600_v2.0.a1 Prupe.6G058600_v2.0.a1
pyrus_communis	pycom03g05820 pycom11g06370
rosa_chinensis	RchiOBHm_Chr5g0069091
rosa_laevigata	RLG00000036037
rosa_multiflora	Rmu_sc0000853.1_g000035 Rmu_sc0000936.1_g000010
rosa_roxburghii	Rroxscaffold_1G00011660
rosa_rugosa	Rorug05G0396200 Rorug05G0396200
rosa_samantha	Rh5AG453000 Rh5BG472000 Rh5CG494400 Rh5DG484500
rosa_wichuraiana	Rw0G006060 Rw5G042300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	811
AccBSI	CCGCTC	1 cut(s)	397
AccI	GTMKAC	1 cut(s)	114
AccII	CGCG	1 cut(s)	207
AciI	CCGC	5 cut(s)	105, 123, 313, 397, 1220
AclWI	GGATC	2 cut(s)	1139, 1260
AcsI	RAATTY	4 cut(s)	303, 878, 953, 1283
AcuI	CTGAAG	1 cut(s)	1313
AdeI	CACNNNGTG	1 cut(s)	440
AfaI	GTAC	4 cut(s)	95, 251, 344, 433
AfiI	CCNNNNNNNGG	5 cut(s)	60, 511, 512, 541, 542
AflII	CTTAAG	1 cut(s)	968
AgsI	TTSAA	4 cut(s)	292, 584, 599, 822
AloI	GAACNNNNNNTCC	2 cut(s)	26, 58
AluBI	AGCT	4 cut(s)	299, 476, 742, 967
AluI	AGCT	4 cut(s)	299, 476, 742, 967
Alw21I	GWGCWC	2 cut(s)	269, 301
Alw26I	GTCTC	3 cut(s)	697, 1015, 1152
AlwI	GGATC	2 cut(s)	1139, 1260
AoxI	GGCC	1 cut(s)	532
ApaI	GGGCCC	1 cut(s)	536
ApeKI	GCWGC	1 cut(s)	476
ApoI	RAATTY	4 cut(s)	303, 878, 953, 1283
ArsI	GACNNNNNNTTYG	4 cut(s)	956, 988, 1268, 1300
AspLEI	GCGC	1 cut(s)	379
AspS9I	GGNCC	3 cut(s)	256, 532, 533
AsuC2I	CCSGG	1 cut(s)	410
AsuHPI	GGTGA	9 cut(s)	133, 452, 506, 557, 629, 662, 734, 1058, 1142
AsuII	TTCGAA	1 cut(s)	663
AvaII	GGWCC	1 cut(s)	256
BaeGI	GKGCMC	2 cut(s)	536, 816
BanI	GGYRCC	1 cut(s)	811
BanII	GRGCYC	3 cut(s)	301, 536, 1059
BauI	CACGAG	1 cut(s)	435
BbsI	GAAGAC	3 cut(s)	718, 793, 1273
Bbv12I	GWGCWC	2 cut(s)	269, 301
BbvI	GCAGC	1 cut(s)	463
BccI	CCATC	3 cut(s)	1037, 1168, 1337
BceAI	ACGGC	1 cut(s)	146
BcgI	CGANNNNNNTGC	2 cut(s)	115, 149
BclI	TGATCA	1 cut(s)	328
BcnI	CCSGG	1 cut(s)	410
BcoDI	GTCTC	3 cut(s)	697, 1015, 1152
BfaI	CTAG	6 cut(s)	17, 558, 975, 1155, 1227, 1371
BfrI	CTTAAG	1 cut(s)	968
BglII	AGATCT	1 cut(s)	554
BisI	GCNGC	3 cut(s)	124, 477, 1220
BlsI	GCNGC	3 cut(s)	125, 478, 1221
Bme1390I	CCNGG	1 cut(s)	410
Bme18I	GGWCC	1 cut(s)	256
BmgT120I	GGNCC	3 cut(s)	256, 532, 533
BmiI	GGNNCC	2 cut(s)	534, 813
BmrFI	CCNGG	1 cut(s)	410
BmrI	ACTGGG	2 cut(s)	228, 716
BmsI	GCATC	2 cut(s)	86, 1123
BmuI	ACTGGG	2 cut(s)	228, 716
BpiI	GAAGAC	3 cut(s)	718, 793, 1273
BpmI	CTGGAG	1 cut(s)	619
Bpu10I	CCTNAGC	1 cut(s)	675
Bpu14I	TTCGAA	1 cut(s)	663
BpuMI	CCSGG	1 cut(s)	410
BsaBI	GATNNNNATC	2 cut(s)	195, 1143
BsaXI	ACNNNNNCTCC	6 cut(s)	65, 86, 95, 116, 171, 201
Bsc4I	CCNNNNNNNGG	5 cut(s)	60, 511, 512, 541, 542
Bse1I	ACTGG	2 cut(s)	223, 711
Bse3DI	GCAATG	1 cut(s)	1279
Bse8I	GATNNNNATC	2 cut(s)	195, 1143
BseGI	GGATG	4 cut(s)	196, 1179, 1183, 1348
BseJI	GATNNNNATC	2 cut(s)	195, 1143
BseLI	CCNNNNNNNGG	5 cut(s)	60, 511, 512, 541, 542
BseMI	GCAATG	1 cut(s)	1279
BseMII	CTCAG	1 cut(s)	1106
BseNI	ACTGG	2 cut(s)	223, 711
BseRI	GAGGAG	6 cut(s)	86, 146, 277, 371, 386, 407
BseSI	GKGCMC	2 cut(s)	536, 816
BseXI	GCAGC	1 cut(s)	463
Bsh1236I	CGCG	1 cut(s)	207
BshFI	GGCC	1 cut(s)	534
BshNI	GGYRCC	1 cut(s)	811
BsiHKAI	GWGCWC	2 cut(s)	269, 301
BsiSI	CCGG	1 cut(s)	409
BsiWI	CGTACG	1 cut(s)	249
BslFI	GGGAC	2 cut(s)	671, 1125
BslI	CCNNNNNNNGG	5 cut(s)	60, 511, 512, 541, 542
BsmAI	GTCTC	3 cut(s)	697, 1015, 1152
BsmFI	GGGAC	2 cut(s)	671, 1125
BsmI	GAATGC	2 cut(s)	27, 126
BsnI	GGCC	1 cut(s)	534
Bsp119I	TTCGAA	1 cut(s)	663
Bsp120I	GGGCCC	1 cut(s)	532
Bsp1286I	GDGCHC	5 cut(s)	269, 301, 536, 816, 1059
Bsp1407I	TGTACA	1 cut(s)	431
Bsp68I	TCGCGA	1 cut(s)	207
BspACI	CCGC	5 cut(s)	105, 123, 313, 397, 1220
BspANI	GGCC	1 cut(s)	534
BspCNI	CTCAG	1 cut(s)	1107
BspFNI	CGCG	1 cut(s)	207
BspHI	TCATGA	3 cut(s)	757, 985, 1165
BspLI	GGNNCC	2 cut(s)	534, 813
BspPI	GGATC	2 cut(s)	1139, 1260
BspT104I	TTCGAA	1 cut(s)	663
BspT107I	GGYRCC	1 cut(s)	811
BspTI	CTTAAG	1 cut(s)	968
BsrBI	CCGCTC	1 cut(s)	397
BsrDI	GCAATG	1 cut(s)	1279
BsrGI	TGTACA	1 cut(s)	431
BsrI	ACTGG	2 cut(s)	223, 711
BssSI	CACGAG	1 cut(s)	435
Bst2BI	CACGAG	1 cut(s)	435
Bst4CI	ACNGT	2 cut(s)	524, 1202
Bst6I	CTCTTC	3 cut(s)	363, 380, 597
BstAFI	CTTAAG	1 cut(s)	968
BstAUI	TGTACA	1 cut(s)	431
BstBI	TTCGAA	1 cut(s)	663
BstC8I	GCNNGC	2 cut(s)	87, 1306
BstDEI	CTNAG	5 cut(s)	339, 675, 743, 1025, 1115
BstF5I	GGATG	4 cut(s)	196, 1179, 1183, 1348
BstFNI	CGCG	1 cut(s)	207
BstHHI	GCGC	1 cut(s)	379
BstMAI	GTCTC	3 cut(s)	697, 1015, 1152
BstMWI	GCNNNNNNNGC	3 cut(s)	167, 245, 1133
BstSCI	CCNGG	1 cut(s)	408
BstSLI	GKGCMC	2 cut(s)	536, 816
BstUI	CGCG	1 cut(s)	207
BstV1I	GCAGC	1 cut(s)	463
BstV2I	GAAGAC	3 cut(s)	718, 793, 1273
BstX2I	RGATCY	1 cut(s)	554
BstYI	RGATCY	1 cut(s)	554
BsuRI	GGCC	1 cut(s)	534
BtgZI	GCGATG	1 cut(s)	1053
BtsCI	GGATG	4 cut(s)	196, 1179, 1183, 1348
BtsIMutI	CAGTG	1 cut(s)	1207
BtuMI	TCGCGA	1 cut(s)	207
Cac8I	GCNNGC	2 cut(s)	87, 1306
CciI	TCATGA	3 cut(s)	757, 985, 1165
CfoI	GCGC	1 cut(s)	379
Cfr13I	GGNCC	3 cut(s)	256, 532, 533
CseI	GACGC	1 cut(s)	1278
Csp6I	GTAC	4 cut(s)	94, 250, 343, 432
CviAII	CATG	4 cut(s)	332, 758, 986, 1166
CviQI	GTAC	4 cut(s)	94, 250, 343, 432
DdeI	CTNAG	5 cut(s)	339, 675, 743, 1025, 1115
DraIII	CACNNNGTG	1 cut(s)	440
Eam1104I	CTCTTC	3 cut(s)	363, 380, 597
EarI	CTCTTC	3 cut(s)	363, 380, 597
EciI	GGCGGA	2 cut(s)	94, 328
Ecl136II	GAGCTC	1 cut(s)	299
Eco24I	GRGCYC	3 cut(s)	301, 536, 1059
Eco47I	GGWCC	1 cut(s)	256
Eco53kI	GAGCTC	1 cut(s)	299
Eco57I	CTGAAG	1 cut(s)	1313
EcoICRI	GAGCTC	1 cut(s)	299
EcoO109I	RGGNCCY	1 cut(s)	532
EcoT38I	GRGCYC	3 cut(s)	301, 536, 1059
FaeI	CATG	4 cut(s)	335, 761, 989, 1169
FaqI	GGGAC	2 cut(s)	671, 1125
FatI	CATG	4 cut(s)	331, 757, 985, 1165
FauI	CCCGC	1 cut(s)	390
FbaI	TGATCA	1 cut(s)	328
FblI	GTMKAC	1 cut(s)	114
Fnu4HI	GCNGC	3 cut(s)	124, 477, 1220
FokI	GGATG	4 cut(s)	203, 1186, 1190, 1355
FriOI	GRGCYC	3 cut(s)	301, 536, 1059
Fsp4HI	GCNGC	3 cut(s)	124, 477, 1220
FspBI	CTAG	6 cut(s)	17, 558, 975, 1155, 1227, 1371
GlaI	GCGC	1 cut(s)	378
GluI	GCNGC	3 cut(s)	124, 477, 1220
GsuI	CTGGAG	1 cut(s)	619
HaeIII	GGCC	1 cut(s)	534
HapII	CCGG	1 cut(s)	409
HgaI	GACGC	1 cut(s)	1278
HhaI	GCGC	1 cut(s)	379
Hin1II	CATG	4 cut(s)	335, 761, 989, 1169
Hin6I	GCGC	1 cut(s)	377
HinP1I	GCGC	1 cut(s)	377
HindIII	AAGCTT	1 cut(s)	965
HinfI	GANTC	6 cut(s)	101, 196, 271, 443, 632, 1357
HpaII	CCGG	1 cut(s)	409
HphI	GGTGA	9 cut(s)	133, 452, 506, 557, 629, 662, 734, 1058, 1142
Hpy166II	GTNNAC	2 cut(s)	115, 434
Hpy188I	TCNGA	5 cut(s)	33, 70, 611, 1257, 1293
Hpy8I	GTNNAC	2 cut(s)	115, 434
Hpy99I	CGWCG	2 cut(s)	122, 1386
HpyCH4III	ACNGT	2 cut(s)	524, 1202
HpyCH4IV	ACGT	2 cut(s)	111, 117
HpyCH4V	TGCA	2 cut(s)	450, 479
HpyF10VI	GCNNNNNNNGC	3 cut(s)	167, 245, 1133
HpyF3I	CTNAG	5 cut(s)	339, 675, 743, 1025, 1115
HpySE526I	ACGT	2 cut(s)	111, 117
Hsp92II	CATG	4 cut(s)	335, 761, 989, 1169
HspAI	GCGC	1 cut(s)	377
Ksp22I	TGATCA	1 cut(s)	328
LmnI	GCTCC	3 cut(s)	264, 296, 394
Lsp1109I	GCAGC	1 cut(s)	463
LweI	GCATC	2 cut(s)	86, 1123
MaeI	CTAG	6 cut(s)	17, 558, 975, 1155, 1227, 1371
MaeII	ACGT	2 cut(s)	111, 117
MaeIII	GTNAC	3 cut(s)	334, 518, 668
MbiI	CCGCTC	1 cut(s)	397
MflI	RGATCY	1 cut(s)	554
MhlI	GDGCHC	5 cut(s)	269, 301, 536, 816, 1059
MlyI	GAGTC	2 cut(s)	95, 626
MseI	TTAA	1 cut(s)	969
MslI	CAYNNNNRTG	2 cut(s)	870, 1038
MspCI	CTTAAG	1 cut(s)	968
MspI	CCGG	1 cut(s)	409
MspR9I	CCNGG	1 cut(s)	410
Mva1269I	GAATGC	2 cut(s)	27, 126
MvnI	CGCG	1 cut(s)	207
MwoI	GCNNNNNNNGC	3 cut(s)	167, 245, 1133
NciI	CCSGG	1 cut(s)	410
NlaIII	CATG	4 cut(s)	335, 761, 989, 1169
NlaIV	GGNNCC	2 cut(s)	534, 813
NmuCI	GTSAC	3 cut(s)	334, 518, 668
NruI	TCGCGA	1 cut(s)	207
NspV	TTCGAA	1 cut(s)	663
PagI	TCATGA	3 cut(s)	757, 985, 1165
PcsI	WCGNNNNNNNCGW	2 cut(s)	141, 183
PctI	GAATGC	2 cut(s)	27, 126
PfeI	GAWTC	4 cut(s)	196, 271, 443, 1357
Pfl23II	CGTACG	1 cut(s)	249
PkrI	GCNGC	3 cut(s)	125, 478, 1221
PleI	GAGTC	2 cut(s)	95, 626
PpsI	GAGTC	2 cut(s)	95, 626
Psp124BI	GAGCTC	1 cut(s)	301
PspLI	CGTACG	1 cut(s)	249
PspN4I	GGNNCC	2 cut(s)	534, 813
PspOMI	GGGCCC	1 cut(s)	532
PspPI	GGNCC	3 cut(s)	256, 532, 533
PsuI	RGATCY	1 cut(s)	554
RruI	TCGCGA	1 cut(s)	207
RsaI	GTAC	4 cut(s)	95, 251, 344, 433
RsaNI	GTAC	4 cut(s)	94, 250, 343, 432
RseI	CAYNNNNRTG	2 cut(s)	870, 1038
SacI	GAGCTC	1 cut(s)	301
SaqAI	TTAA	1 cut(s)	969
SatI	GCNGC	3 cut(s)	124, 477, 1220
Sau96I	GGNCC	3 cut(s)	256, 532, 533
SchI	GAGTC	2 cut(s)	95, 626
ScrFI	CCNGG	1 cut(s)	410
SduI	GDGCHC	5 cut(s)	269, 301, 536, 816, 1059
SfaNI	GCATC	2 cut(s)	86, 1123
SfuI	TTCGAA	1 cut(s)	663
SinI	GGWCC	1 cut(s)	256
SmiMI	CAYNNNNRTG	2 cut(s)	870, 1038
SmlI	CTYRAG	1 cut(s)	968
SmoI	CTYRAG	1 cut(s)	968
SsiI	CCGC	5 cut(s)	105, 123, 313, 397, 1220
SspMI	CTAG	6 cut(s)	17, 558, 975, 1155, 1227, 1371
SstI	GAGCTC	1 cut(s)	301
StyD4I	CCNGG	1 cut(s)	408
TaaI	ACNGT	2 cut(s)	524, 1202
TaiI	ACGT	2 cut(s)	114, 120
TaqI	TCGA	4 cut(s)	135, 663, 1298, 1334
TatI	WGTACW	3 cut(s)	93, 342, 431
TauI	GCSGC	2 cut(s)	126, 1222
TfiI	GAWTC	4 cut(s)	196, 271, 443, 1357
Tru1I	TTAA	1 cut(s)	969
Tru9I	TTAA	1 cut(s)	969
TscAI	CASTG	1 cut(s)	1207
TseFI	GTSAC	3 cut(s)	334, 518, 668
TseI	GCWGC	1 cut(s)	476
Tsp45I	GTSAC	3 cut(s)	334, 518, 668
TspDTI	ATGAA	8 cut(s)	17, 381, 744, 819, 891, 1194, 1224, 1296
TspGWI	ACGGA	3 cut(s)	192, 309, 805
TspRI	CASTG	1 cut(s)	1207
Vha464I	CTTAAG	1 cut(s)	968
VpaK11BI	GGWCC	1 cut(s)	256
XapI	RAATTY	4 cut(s)	303, 878, 953, 1283
XbaI	TCTAGA	4 cut(s)	974, 1154, 1226, 1370
XmiI	GTMKAC	1 cut(s)	114
XspI	CTAG	6 cut(s)	17, 558, 975, 1155, 1227, 1371

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