Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr16

Orthogroup ID

OG0011340

Physical Location & Seq

Genomic Coordinates Forward (+)

377535 .. 380530

Gene Structure 2996 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD16G1005000.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1095 bp

ATGATGATTCAGCTGCAATCCCAAGTTTCATCATCATCATCATGCCCAGTGGGCCCAATCTCATTTGAGGTTCCGAAAGGCCGGATGTCTGCCTTGAATGTACGATCAGGAGGACGACGACGAGGAATACGATGTAAGGCGGTGGCGGTGGGAATGGGGCCTTACACGGGGAGAGACCCAGATGCGAAGAAGGCGGAATGGCTAAGGCAGAAAGCCCCCCAGGGACACAAGTACGGGGAGGTCAAGGAGTCCTTGTCCCGTCTGAATCTCAAGACGGTGTGCGAGGAGGCCCAGTGCCCTAACATCGGCGAATGTTGGAATGGAGGTGGCGATGGCATTTCCACTGCCACCATCATGCTCCTCGGAGACACCTGCACCCGCGGCTGTCGCTTCTGTGCCGTCAAGACCAGCCGGACTCCTCCACCTCCCGATCCCATGGAGCCTCTCCACACTGCCACCGCCGTTGCCAGCTGGGGCGTCGATTATATTGTTTTAACCAGTGTTGATCGCGATGACCTGGCCGATGGTGGAAGCGGACATTTTGCTCGCACCGTCCAAGCCCTCAAGACTCTCAAGCCTGACATCATGGTTGAGTGTTTAACTTCCGACTTTCGCGGTGACTTGACGGCTGTACACACTCTGCTTTACTCTGGACTTGATGTTTTTGCACACAACATTGAGACCGTCAAACGCCTCCAGCGAATTGTCAGAGACCCTCGCGCTGGGTATGAGCAAAGCTTATCTGTTCTAAGACATGCAAAGCAAAGCAAGAAGGGGATGATAACAAAAACTTCTATAATGTTGGGCCTGGGAGAAACAGACAATGAGTTGAAGGAAACCATGGCTGATTTAAGGGCTATAGATGTTGATATATTGACACTTGGACAATATTTACAGCCAACTCCATTACATTTGACTGTCAAAGAATATGTCGGCCCTGAGAAATTCGTTTTCTGGAAGGAATATGGGGAGTCTATTGGATTTCGTTATGTAGCCAGTGGCCCCTTGGTCCGGTCCTCGTATAGGGCAGGGGAACTGTTTGTTAAAACAATGGTCAGGGAAATGGCTAACAGCTCTACTGGCGTACCTCAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006082 GO:0006464 GO:0006629 GO:0006631 GO:0006633 GO:0006732 GO:0006790 GO:0006807 GO:0008150 GO:0008152 GO:0008610 GO:0009058 GO:0009106 GO:0009107 GO:0009108 GO:0009249 GO:0009507 GO:0009536 GO:0009987 GO:0010467 GO:0016053 GO:0016740 GO:0016782 GO:0016783 GO:0016992 GO:0018065 GO:0018130 GO:0018193 GO:0018205 GO:0019538 GO:0019752 GO:0032787 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044260 GO:0044267 GO:0044272 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046394 GO:0046483 GO:0051186 GO:0051188 GO:0051604 GO:0070283 GO:0071704 GO:0072330 GO:1901360 GO:1901362 GO:1901564 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00785 ko01100 map00785 map01100

Pfam Domains

Protein Families

LIAS_N Radical_SAM rRNA_methylase

Protein Analysis

365

Amino Acids

39.86

Weight (kDa)

8.87

Isoelectric Point (pI)

41.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LIAS_N	PF16881	65 - 99	3.1e-08	N-terminal domain of lipoyl synthase of Radical_SAM family
Radical_SAM	PF04055	121 - 283	4.7e-23	Radical SAM superfamily

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: OG0011340)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G08415
fragaria_vesca	FvH4_4g37350
malus_domestica	MD12G1087800.v1.1 MD13G1000600.v1.1 MD16G1005000.v1.1
prunus_persica	Prupe.1G352000_v2.0.a1 Prupe.1G352000_v2.0.a1 Prupe.1G352000_v2.0.a1 Prupe.1G352000_v2.0.a1
pyrus_communis	pycom12g07510 pycom13g00060
rosa_chinensis	RchiOBHm_Chr4g0447211
rosa_laevigata	RLG00000005596
rosa_multiflora	Rmu_ssc0000396.1_g000001
rosa_rugosa	Rorug04G0379000
rosa_samantha	Rh4AG440300 Rh4BG449300 Rh4CG466300 Rh4DG447800
rosa_wichuraiana	Rw4G037670

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	380
Acc36I	ACCTGC	1 cut(s)	380
AccII	CGCG	4 cut(s)	381, 510, 615, 720
AciI	CCGC	8 cut(s)	140, 146, 194, 379, 381, 459, 534, 615
AclWI	GGATC	1 cut(s)	425
AcoI	YGGCCR	1 cut(s)	519
AcsI	RAATTY	1 cut(s)	944
AcyI	GRCGYC	1 cut(s)	477
AfaI	GTAC	4 cut(s)	102, 233, 633, 1086
AfiI	CCNNNNNNNGG	5 cut(s)	167, 305, 722, 1011, 1023
AgsI	TTSAA	2 cut(s)	97, 832
AjnI	CCWGG	3 cut(s)	219, 516, 807
AluBI	AGCT	4 cut(s)	13, 471, 738, 1074
AluI	AGCT	4 cut(s)	13, 471, 738, 1074
Alw26I	GTCTC	4 cut(s)	168, 360, 674, 705
AlwI	GGATC	1 cut(s)	425
AoxI	GGCC	8 cut(s)	52, 79, 158, 288, 519, 805, 934, 1000
ApaI	GGGCCC	1 cut(s)	56
ApeKI	GCWGC	1 cut(s)	13
ApoI	RAATTY	1 cut(s)	944
ArsI	GACNNNNNNTTYG	2 cut(s)	915, 947
AspLEI	GCGC	1 cut(s)	722
AspS9I	GGNCC	9 cut(s)	52, 53, 158, 289, 805, 935, 1001, 1009, 1014
AsuHPI	GGTGA	1 cut(s)	629
AvaII	GGWCC	2 cut(s)	1009, 1014
BaeGI	GKGCMC	2 cut(s)	56, 299
BaeI	ACNNNNGTAYC	1 cut(s)	1068
BanII	GRGCYC	1 cut(s)	56
BccI	CCATC	3 cut(s)	326, 359, 518
BceAI	ACGGC	3 cut(s)	383, 446, 642
BciT130I	CCWGG	3 cut(s)	221, 518, 809
BcoDI	GTCTC	4 cut(s)	168, 360, 674, 705
BfmI	CTRYAG	1 cut(s)	858
BfuAI	ACCTGC	1 cut(s)	380
BglI	GCCNNNNNGGC	1 cut(s)	51
BisI	GCNGC	2 cut(s)	14, 382
BlsI	GCNGC	2 cut(s)	15, 383
Bme1390I	CCNGG	3 cut(s)	221, 518, 809
Bme18I	GGWCC	2 cut(s)	1009, 1014
BmgT120I	GGNCC	9 cut(s)	52, 53, 158, 289, 805, 935, 1001, 1009, 1014
BmiI	GGNNCC	5 cut(s)	54, 72, 159, 441, 1003
BmrFI	CCNGG	3 cut(s)	221, 518, 809
BmrI	ACTGGG	2 cut(s)	41, 286
BmsI	GCATC	1 cut(s)	172
BmuI	ACTGGG	2 cut(s)	41, 286
BpmI	CTGGAG	1 cut(s)	680
Bpu10I	CCTNAGC	1 cut(s)	203
BpuEI	CTTGAG	3 cut(s)	254, 548, 557
BsaHI	GRCGYC	1 cut(s)	477
BsaI	GGTCTC	3 cut(s)	168, 674, 705
BsaJI	CCNNGG	8 cut(s)	219, 220, 361, 379, 435, 808, 840, 1005
BsaWI	WCCGGW	1 cut(s)	1011
BsaXI	ACNNNNNCTCC	4 cut(s)	239, 269, 278, 308
Bsc4I	CCNNNNNNNGG	5 cut(s)	167, 305, 722, 1011, 1023
Bse1I	ACTGG	5 cut(s)	47, 292, 498, 996, 1084
BseBI	CCWGG	3 cut(s)	221, 518, 809
BseDI	CCNNGG	8 cut(s)	219, 220, 361, 379, 435, 808, 840, 1005
BseGI	GGATG	2 cut(s)	90, 783
BseLI	CCNNNNNNNGG	5 cut(s)	167, 305, 722, 1011, 1023
BseMII	CTCAG	1 cut(s)	930
BseNI	ACTGG	5 cut(s)	47, 292, 498, 996, 1084
BseRI	GAGGAG	3 cut(s)	299, 350, 408
BseSI	GKGCMC	2 cut(s)	56, 299
BseYI	CCCAGC	2 cut(s)	471, 722
BsgI	GTGCAG	1 cut(s)	358
Bsh1236I	CGCG	4 cut(s)	381, 510, 615, 720
BshFI	GGCC	8 cut(s)	54, 81, 160, 290, 521, 807, 936, 1002
BsiSI	CCGG	3 cut(s)	82, 412, 1012
BslFI	GGGAC	2 cut(s)	237, 241
BslI	CCNNNNNNNGG	5 cut(s)	167, 305, 722, 1011, 1023
BsmAI	GTCTC	4 cut(s)	168, 360, 674, 705
BsmFI	GGGAC	2 cut(s)	237, 241
BsnI	GGCC	8 cut(s)	54, 81, 160, 290, 521, 807, 936, 1002
Bso31I	GGTCTC	3 cut(s)	168, 674, 705
Bsp120I	GGGCCC	1 cut(s)	52
Bsp1286I	GDGCHC	2 cut(s)	56, 299
Bsp1407I	TGTACA	1 cut(s)	631
Bsp143I	GATC	3 cut(s)	104, 430, 505
Bsp19I	CCATGG	2 cut(s)	435, 840
Bsp68I	TCGCGA	1 cut(s)	510
BspACI	CCGC	8 cut(s)	140, 146, 194, 379, 381, 459, 534, 615
BspANI	GGCC	8 cut(s)	54, 81, 160, 290, 521, 807, 936, 1002
BspCNI	CTCAG	1 cut(s)	931
BspFNI	CGCG	4 cut(s)	381, 510, 615, 720
BspLI	GGNNCC	5 cut(s)	54, 72, 159, 441, 1003
BspMI	ACCTGC	1 cut(s)	380
BspPI	GGATC	1 cut(s)	425
BspTNI	GGTCTC	3 cut(s)	168, 674, 705
BsrGI	TGTACA	1 cut(s)	631
BsrI	ACTGG	5 cut(s)	47, 292, 498, 996, 1084
BssECI	CCNNGG	8 cut(s)	219, 220, 361, 379, 435, 808, 840, 1005
BssMI	GATC	3 cut(s)	104, 430, 505
BssNI	GRCGYC	1 cut(s)	477
BssT1I	CCWWGG	3 cut(s)	435, 840, 1005
Bst2UI	CCWGG	3 cut(s)	221, 518, 809
Bst4CI	ACNGT	5 cut(s)	277, 553, 685, 919, 1038
BstACI	GRCGYC	1 cut(s)	477
BstAUI	TGTACA	1 cut(s)	631
BstC8I	GCNNGC	2 cut(s)	469, 547
BstDEI	CTNAG	4 cut(s)	203, 749, 939, 1089
BstDSI	CCRYGG	3 cut(s)	379, 435, 840
BstENI	CCTNNNNNAGG	1 cut(s)	1021
BstF5I	GGATG	2 cut(s)	90, 783
BstFNI	CGCG	4 cut(s)	381, 510, 615, 720
BstHHI	GCGC	1 cut(s)	722
BstKTI	GATC	3 cut(s)	107, 433, 508
BstMAI	GTCTC	4 cut(s)	168, 360, 674, 705
BstMBI	GATC	3 cut(s)	104, 430, 505
BstMWI	GCNNNNNNNGC	5 cut(s)	51, 191, 381, 387, 1080
BstNI	CCWGG	3 cut(s)	221, 518, 809
BstNSI	RCATGY	1 cut(s)	758
BstSCI	CCNGG	3 cut(s)	219, 516, 807
BstSFI	CTRYAG	1 cut(s)	858
BstSLI	GKGCMC	2 cut(s)	56, 299
BstUI	CGCG	4 cut(s)	381, 510, 615, 720
BsuRI	GGCC	8 cut(s)	54, 81, 160, 290, 521, 807, 936, 1002
BtgI	CCRYGG	3 cut(s)	379, 435, 840
BtgZI	GCGATG	2 cut(s)	345, 525
BtsCI	GGATG	2 cut(s)	90, 783
BtsI	GCAGTG	2 cut(s)	342, 450
BtsIMutI	CAGTG	6 cut(s)	54, 299, 342, 450, 505, 1003
BtuMI	TCGCGA	1 cut(s)	510
BveI	ACCTGC	1 cut(s)	380
Cac8I	GCNNGC	2 cut(s)	469, 547
CfoI	GCGC	1 cut(s)	722
Cfr13I	GGNCC	9 cut(s)	52, 53, 158, 289, 805, 935, 1001, 1009, 1014
Cfr42I	CCGCGG	1 cut(s)	382
CseI	GACGC	1 cut(s)	466
Csp6I	GTAC	4 cut(s)	101, 232, 632, 1085
CspCI	CAANNNNNGTGG	2 cut(s)	445, 480
CviAII	CATG	6 cut(s)	42, 355, 436, 586, 755, 841
CviQI	GTAC	4 cut(s)	101, 232, 632, 1085
DdeI	CTNAG	4 cut(s)	203, 749, 939, 1089
DpnI	GATC	3 cut(s)	106, 432, 507
DpnII	GATC	3 cut(s)	104, 430, 505
EaeI	YGGCCR	1 cut(s)	519
EciI	GGCGGA	1 cut(s)	209
Eco130I	CCWWGG	3 cut(s)	435, 840, 1005
Eco24I	GRGCYC	1 cut(s)	56
Eco31I	GGTCTC	3 cut(s)	168, 674, 705
Eco47I	GGWCC	2 cut(s)	1009, 1014
EcoNI	CCTNNNNNAGG	1 cut(s)	1021
EcoO109I	RGGNCCY	1 cut(s)	158
EcoRII	CCWGG	3 cut(s)	219, 516, 807
EcoT14I	CCWWGG	3 cut(s)	435, 840, 1005
EcoT38I	GRGCYC	1 cut(s)	56
ErhI	CCWWGG	3 cut(s)	435, 840, 1005
FaeI	CATG	6 cut(s)	45, 358, 439, 589, 758, 844
FalI	AAGNNNNNCTT	2 cut(s)	236, 268
FaqI	GGGAC	2 cut(s)	237, 241
FatI	CATG	6 cut(s)	41, 354, 435, 585, 754, 840
FauI	CCCGC	1 cut(s)	386
Fnu4HI	GCNGC	2 cut(s)	14, 382
FokI	GGATG	2 cut(s)	97, 790
FriOI	GRGCYC	1 cut(s)	56
Fsp4HI	GCNGC	2 cut(s)	14, 382
GlaI	GCGC	1 cut(s)	721
GluI	GCNGC	2 cut(s)	14, 382
GsaI	CCCAGC	2 cut(s)	475, 726
GsuI	CTGGAG	1 cut(s)	680
HaeIII	GGCC	8 cut(s)	54, 81, 160, 290, 521, 807, 936, 1002
HapII	CCGG	3 cut(s)	82, 412, 1012
HgaI	GACGC	1 cut(s)	466
HhaI	GCGC	1 cut(s)	722
Hin1I	GRCGYC	1 cut(s)	477
Hin1II	CATG	6 cut(s)	45, 358, 439, 589, 758, 844
Hin6I	GCGC	1 cut(s)	720
HinP1I	GCGC	1 cut(s)	720
HindIII	AAGCTT	1 cut(s)	736
HinfI	GANTC	6 cut(s)	7, 248, 265, 415, 568, 971
HpaII	CCGG	3 cut(s)	82, 412, 1012
HphI	GGTGA	1 cut(s)	629
Hpy166II	GTNNAC	1 cut(s)	634
Hpy188I	TCNGA	5 cut(s)	75, 264, 365, 607, 710
Hpy188III	TCNNGA	8 cut(s)	108, 271, 403, 428, 509, 565, 651, 955
Hpy8I	GTNNAC	1 cut(s)	634
Hpy99I	CGWCG	3 cut(s)	120, 123, 482
HpyAV	CCTTC	4 cut(s)	184, 766, 826, 952
HpyCH4III	ACNGT	5 cut(s)	277, 553, 685, 919, 1038
HpyCH4V	TGCA	4 cut(s)	16, 375, 668, 758
HpyF10VI	GCNNNNNNNGC	5 cut(s)	51, 191, 381, 387, 1080
HpyF3I	CTNAG	4 cut(s)	203, 749, 939, 1089
Hsp92I	GRCGYC	1 cut(s)	477
Hsp92II	CATG	6 cut(s)	45, 358, 439, 589, 758, 844
HspAI	GCGC	1 cut(s)	720
KspI	CCGCGG	1 cut(s)	382
Kzo9I	GATC	3 cut(s)	104, 430, 505
LmnI	GCTCC	2 cut(s)	363, 439
LweI	GCATC	1 cut(s)	172
MaeIII	GTNAC	1 cut(s)	617
MalI	GATC	3 cut(s)	106, 432, 507
MboI	GATC	3 cut(s)	104, 430, 505
MboII	GAAGA	1 cut(s)	199
MhlI	GDGCHC	2 cut(s)	56, 299
MluCI	AATT	2 cut(s)	702, 944
MlyI	GAGTC	4 cut(s)	257, 409, 562, 980
MmeI	TCCRAC	2 cut(s)	296, 630
MseI	TTAA	4 cut(s)	494, 599, 851, 1044
MslI	CAYNNNNRTG	2 cut(s)	40, 353
MspA1I	CMGCKG	3 cut(s)	13, 381, 471
MspI	CCGG	3 cut(s)	82, 412, 1012
MspR9I	CCNGG	3 cut(s)	221, 518, 809
MvaI	CCWGG	3 cut(s)	221, 518, 809
MvnI	CGCG	4 cut(s)	381, 510, 615, 720
MwoI	GCNNNNNNNGC	5 cut(s)	51, 191, 381, 387, 1080
NcoI	CCATGG	2 cut(s)	435, 840
NdeII	GATC	3 cut(s)	104, 430, 505
NlaIII	CATG	6 cut(s)	45, 358, 439, 589, 758, 844
NlaIV	GGNNCC	5 cut(s)	54, 72, 159, 441, 1003
NmuCI	GTSAC	1 cut(s)	617
NruI	TCGCGA	1 cut(s)	510
NspI	RCATGY	1 cut(s)	758
PaqCI	CACCTGC	1 cut(s)	380
PasI	CCCWGGG	1 cut(s)	220
PcsI	WCGNNNNNNNCGW	2 cut(s)	127, 697
PfeI	GAWTC	2 cut(s)	7, 265
PkrI	GCNGC	2 cut(s)	15, 383
PleI	GAGTC	4 cut(s)	256, 409, 562, 979
PpsI	GAGTC	4 cut(s)	256, 409, 562, 979
Psp6I	CCWGG	3 cut(s)	219, 516, 807
PspFI	CCCAGC	2 cut(s)	471, 722
PspGI	CCWGG	3 cut(s)	219, 516, 807
PspN4I	GGNNCC	5 cut(s)	54, 72, 159, 441, 1003
PspOMI	GGGCCC	1 cut(s)	52
PspPI	GGNCC	9 cut(s)	52, 53, 158, 289, 805, 935, 1001, 1009, 1014
PvuII	CAGCTG	2 cut(s)	13, 471
RruI	TCGCGA	1 cut(s)	510
RsaI	GTAC	4 cut(s)	102, 233, 633, 1086
RsaNI	GTAC	4 cut(s)	101, 232, 632, 1085
RseI	CAYNNNNRTG	2 cut(s)	40, 353
SacII	CCGCGG	1 cut(s)	382
SaqAI	TTAA	4 cut(s)	494, 599, 851, 1044
SatI	GCNGC	2 cut(s)	14, 382
Sau3AI	GATC	3 cut(s)	104, 430, 505
Sau96I	GGNCC	9 cut(s)	52, 53, 158, 289, 805, 935, 1001, 1009, 1014
SchI	GAGTC	4 cut(s)	257, 409, 562, 980
ScrFI	CCNGG	3 cut(s)	221, 518, 809
SduI	GDGCHC	2 cut(s)	56, 299
SfaNI	GCATC	1 cut(s)	172
SfcI	CTRYAG	1 cut(s)	858
Sfr303I	CCGCGG	1 cut(s)	382
SgrBI	CCGCGG	1 cut(s)	382
SinI	GGWCC	2 cut(s)	1009, 1014
SmiMI	CAYNNNNRTG	2 cut(s)	40, 353
SmlI	CTYRAG	3 cut(s)	269, 563, 572
SmoI	CTYRAG	3 cut(s)	269, 563, 572
Sse9I	AATT	2 cut(s)	702, 944
SsiI	CCGC	8 cut(s)	140, 146, 194, 379, 381, 459, 534, 615
SspI	AATATT	1 cut(s)	890
StyD4I	CCNGG	3 cut(s)	219, 516, 807
StyI	CCWWGG	3 cut(s)	435, 840, 1005
TaaI	ACNGT	5 cut(s)	277, 553, 685, 919, 1038
TaqI	TCGA	1 cut(s)	480
TasI	AATT	2 cut(s)	702, 944
TatI	WGTACW	1 cut(s)	631
TauI	GCSGC	1 cut(s)	384
TfiI	GAWTC	2 cut(s)	7, 265
Tru1I	TTAA	4 cut(s)	494, 599, 851, 1044
Tru9I	TTAA	4 cut(s)	494, 599, 851, 1044
TscAI	CASTG	6 cut(s)	54, 299, 349, 457, 505, 1003
TseFI	GTSAC	1 cut(s)	617
TseI	GCWGC	1 cut(s)	13
Tsp45I	GTSAC	1 cut(s)	617
TspDTI	ATGAA	1 cut(s)	18
TspRI	CASTG	6 cut(s)	54, 299, 349, 457, 505, 1003
VpaK11BI	GGWCC	2 cut(s)	1009, 1014
XagI	CCTNNNNNAGG	1 cut(s)	1021
XapI	RAATTY	1 cut(s)	944
XceI	RCATGY	1 cut(s)	758
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1003

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