Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr16

Orthogroup ID

OG0016608

Physical Location & Seq

Genomic Coordinates Reverse (-)

8338184 .. 8341499

Gene Structure 3316 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD16G1117500.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1173 bp

ATGTTCGGAGCTCAATCTTCGTCGTCCCCCTTCGGGACGCCGTCGTCGACCCCAGCGTTCGGGACTCCGTCGTCGACCCCAGCGTTCGGGACTCCGTCGTCGACCCCGGCATTCGGTACGCCATCTTCGACCCCATCGTTCTTTACTCCTTCGACCCCGGCCTTTGGAACTCCGTCGACGTCTGCATTTTCCGCCGGTGGCTTCGGCGGCTCCTTATTCAGCACTCCGTTCTCTTCTCAAACTCAGCAGCAACAGCAACAGCAGCAAACGCCGTCGTTTCAGCAGCCTCAGTCTGCTGGCGGCTTTGGGTTTCAGGCTCCGTTCTCTACGCCGCAGCAGCCGACGCCCTTCCCTAATTCTCAATTGACGACTCAGATGGCTCCTGTCGCTCCTCTCCCTTTCTCTCTCGCCGATCGCGATATTCAAGCAATTGTTGATGCTTACAAGGACGAGCCTGGAAACCCTAAATATGCTTTTAAGCATTTGCTGTTTAGCGTAACTGATCCGCAGTTCAGGGTGAAGCCTGCTGGTGTATCGGATATAATGTGGGCAGAGGCTTTGGCGAAGCTTGAAGGTCTGGAAAGTACTGACAGGGAACGCCTGTGGCCTCAGCTTGTTCAGGGTTTTAAAGATCTCTCTCAACGACTGAAGCTCCAAGATGAAGTCCTTCTCTCAGATGCTGAGAGATTGCAAATGACCCAAAGCAACGTCAAGATGCTTCAAAGGCATTTTCAAGCTGACACTCTTCCTTGGATCGAAAGAATGAGACAAAAAGAACAAGGTCTTCAAAGGCGCCTTTTGAGGGTGATGAGAATACTGGAGGCACTAGAGGGCAAGGGTTTCCGACTGCCTTTAATGAAAGGTGAAGCAGAGTTGGCTGAGAAGTTAGCTGCAGTTACAGGACAGCTGAAAGGATCAGGAGCTGAACTTTCTAGGAGGGTACAAAACCTATTAACCATATCCCGTGTCCAAGAGAATTCTATTGGTGGCGGTGGTTTGGGTTATCTTCCAGGATCAACCAAAATACATGAACAGAGTCTTGCTGCTATGCAAGAGGTGTTACAGCAGCAGACGGAAGCCGTTGCGAGACTTGGCAATGTTTTGAAGCGAGATATTAGGGATATGGAGATTATAATGGCTGAGGATATGGAAACAACACAGAACGGGAGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005643 GO:0005730 GO:0006606 GO:0006607 GO:0006810 GO:0006886 GO:0006913 GO:0006996 GO:0006997 GO:0006999 GO:0008104 GO:0008150 GO:0009987 GO:0012505 GO:0015031 GO:0015833 GO:0016043 GO:0017038 GO:0017056 GO:0031967 GO:0031974 GO:0031975 GO:0031981 GO:0032991 GO:0033036 GO:0033365 GO:0034504 GO:0034613 GO:0036228 GO:0042886 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043933 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044613 GO:0045184 GO:0046907 GO:0051169 GO:0051170 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0070013 GO:0070727 GO:0071702 GO:0071705 GO:0071840 GO:0072594 GO:0072657 GO:0090435

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

Nup54

Protein Analysis

391

Amino Acids

42.48

Weight (kDa)

6.37

Isoelectric Point (pI)

53.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Nup54	PF13874	174 - 318	4.8e-31	Nucleoporin complex subunit 54

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)

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Orthologous Genes (Group: OG0016608)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G24310
fragaria_vesca	FvH4_4g23970
malus_domestica	MD13G1116800.v1.1 MD16G1117500.v1.1
prunus_persica	Prupe.1G228700_v2.0.a1
pyrus_communis	pycom13g10140 pycom16g10070
rosa_chinensis	RchiOBHm_Chr4g0430621
rosa_laevigata	RLG00000006962
rosa_multiflora	Rmu_sc0000131.1_g000016
rosa_roxburghii	Rroxscaffold_5G00372370
rosa_rugosa	Rorug04G0244800
rosa_samantha	Rh4DG305500
rosa_wichuraiana	Rw4G026100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1133
AasI	GACNNNNNNGTC	3 cut(s)	43, 70, 97
AatII	GACGTC	1 cut(s)	182
AccB1I	GGYRCC	1 cut(s)	792
AccI	GTMKAC	4 cut(s)	47, 74, 101, 176
AccII	CGCG	1 cut(s)	417
AciI	CCGC	6 cut(s)	192, 207, 300, 332, 506, 990
AclWI	GGATC	4 cut(s)	497, 761, 922, 1021
AcsI	RAATTY	1 cut(s)	976
AcuI	CTGAAG	1 cut(s)	668
AcyI	GRCGYC	4 cut(s)	38, 179, 344, 793
AfaI	GTAC	3 cut(s)	118, 586, 942
AfiI	CCNNNNNNNGG	6 cut(s)	33, 59, 86, 113, 164, 802
AgsI	TTSAA	6 cut(s)	425, 572, 722, 734, 788, 1105
AjnI	CCWGG	2 cut(s)	454, 1009
AluBI	AGCT	9 cut(s)	11, 568, 613, 652, 737, 890, 907, 923, 1170
AluI	AGCT	9 cut(s)	11, 568, 613, 652, 737, 890, 907, 923, 1170
Alw21I	GWGCWC	1 cut(s)	13
Alw26I	GTCTC	2 cut(s)	760, 1081
AlwI	GGATC	4 cut(s)	497, 761, 922, 1021
AlwNI	CAGNNNCTG	2 cut(s)	680, 923
AoxI	GGCC	2 cut(s)	159, 605
ApeKI	GCWGC	8 cut(s)	247, 262, 283, 334, 337, 890, 1043, 1066
ApoI	RAATTY	1 cut(s)	976
Asp700I	GAANNNNTTC	1 cut(s)	666
AspLEI	GCGC	1 cut(s)	795
AsuC2I	CCSGG	2 cut(s)	107, 158
AsuHPI	GGTGA	3 cut(s)	529, 817, 875
BanI	GGYRCC	1 cut(s)	792
BanII	GRGCYC	1 cut(s)	13
BarI	GAAGNNNNNNTAC	2 cut(s)	109, 141
BbsI	GAAGAC	1 cut(s)	776
Bbv12I	GWGCWC	1 cut(s)	13
BbvCI	CCTCAGC	2 cut(s)	609, 1140
BbvI	GCAGC	8 cut(s)	259, 274, 295, 346, 349, 877, 1030, 1078
BccI	CCATC	3 cut(s)	130, 142, 370
BceAI	ACGGC	3 cut(s)	25, 256, 1064
BciT130I	CCWGG	2 cut(s)	456, 1011
BcnI	CCSGG	2 cut(s)	107, 158
BcoDI	GTCTC	2 cut(s)	760, 1081
BfaI	CTAG	2 cut(s)	827, 933
BfmI	CTRYAG	1 cut(s)	891
BfoI	RGCGCY	1 cut(s)	796
BglII	AGATCT	1 cut(s)	631
BmcAI	AGTACT	1 cut(s)	586
Bme1390I	CCNGG	4 cut(s)	107, 158, 456, 1011
BmiI	GGNNCC	4 cut(s)	211, 318, 381, 794
BmrFI	CCNGG	4 cut(s)	107, 158, 456, 1011
BmsI	GCATC	3 cut(s)	427, 667, 705
BpiI	GAAGAC	1 cut(s)	776
BpmI	CTGGAG	1 cut(s)	839
Bpu10I	CCTNAGC	2 cut(s)	609, 1140
BpuMI	CCSGG	2 cut(s)	107, 158
BsaHI	GRCGYC	4 cut(s)	38, 179, 344, 793
BsaJI	CCNNGG	3 cut(s)	105, 156, 749
BsaXI	ACNNNNNCTCC	2 cut(s)	636, 666
Bsc4I	CCNNNNNNNGG	6 cut(s)	33, 59, 86, 113, 164, 802
Bse118I	RCCGGY	1 cut(s)	194
Bse1I	ACTGG	1 cut(s)	822
Bse3DI	GCAATG	1 cut(s)	1102
BseBI	CCWGG	2 cut(s)	456, 1011
BseDI	CCNNGG	3 cut(s)	105, 156, 749
BseLI	CCNNNNNNNGG	6 cut(s)	33, 59, 86, 113, 164, 802
BseMI	GCAATG	1 cut(s)	1102
BseMII	CTCAG	8 cut(s)	257, 302, 386, 623, 672, 687, 870, 1131
BseNI	ACTGG	1 cut(s)	822
BseRI	GAGGAG	1 cut(s)	381
BseXI	GCAGC	8 cut(s)	259, 274, 295, 346, 349, 877, 1030, 1078
BseYI	CCCAGC	2 cut(s)	52, 79
Bsh1236I	CGCG	1 cut(s)	417
Bsh1285I	CGRYCG	1 cut(s)	415
BshFI	GGCC	2 cut(s)	161, 607
BshNI	GGYRCC	1 cut(s)	792
BsiEI	CGRYCG	1 cut(s)	415
BsiHKAI	GWGCWC	1 cut(s)	13
BsiSI	CCGG	3 cut(s)	107, 158, 195
BslFI	GGGAC	4 cut(s)	10, 49, 76, 103
BslI	CCNNNNNNNGG	6 cut(s)	33, 59, 86, 113, 164, 802
BsmAI	GTCTC	2 cut(s)	760, 1081
BsmFI	GGGAC	4 cut(s)	10, 49, 76, 103
BsmI	GAATGC	1 cut(s)	110
BsnI	GGCC	2 cut(s)	161, 607
Bsp1286I	GDGCHC	1 cut(s)	13
Bsp143I	GATC	6 cut(s)	412, 502, 631, 753, 914, 1013
Bsp68I	TCGCGA	1 cut(s)	417
BspACI	CCGC	6 cut(s)	192, 207, 300, 332, 506, 990
BspANI	GGCC	2 cut(s)	161, 607
BspCNI	CTCAG	8 cut(s)	256, 301, 385, 622, 673, 686, 871, 1132
BspFNI	CGCG	1 cut(s)	417
BspLI	GGNNCC	4 cut(s)	211, 318, 381, 794
BspMAI	CTGCAG	1 cut(s)	895
BspPI	GGATC	4 cut(s)	497, 761, 922, 1021
BspT107I	GGYRCC	1 cut(s)	792
BsrDI	GCAATG	1 cut(s)	1102
BsrFI	RCCGGY	1 cut(s)	194
BsrI	ACTGG	1 cut(s)	822
BssAI	RCCGGY	1 cut(s)	194
BssECI	CCNNGG	3 cut(s)	105, 156, 749
BssMI	GATC	6 cut(s)	412, 502, 631, 753, 914, 1013
BssNI	GRCGYC	4 cut(s)	38, 179, 344, 793
BssT1I	CCWWGG	1 cut(s)	749
Bst2UI	CCWGG	2 cut(s)	456, 1011
Bst6I	CTCTTC	2 cut(s)	238, 750
BstACI	GRCGYC	4 cut(s)	38, 179, 344, 793
BstC8I	GCNNGC	2 cut(s)	298, 525
BstDEI	CTNAG	8 cut(s)	243, 288, 372, 609, 673, 681, 879, 1140
BstFNI	CGCG	1 cut(s)	417
BstH2I	RGCGCY	1 cut(s)	796
BstHHI	GCGC	1 cut(s)	795
BstKTI	GATC	6 cut(s)	415, 505, 634, 756, 917, 1016
BstMAI	GTCTC	2 cut(s)	760, 1081
BstMBI	GATC	6 cut(s)	412, 502, 631, 753, 914, 1013
BstMCI	CGRYCG	1 cut(s)	415
BstNI	CCWGG	2 cut(s)	456, 1011
BstSCI	CCNGG	4 cut(s)	105, 156, 454, 1009
BstSFI	CTRYAG	1 cut(s)	891
BstUI	CGCG	1 cut(s)	417
BstV1I	GCAGC	8 cut(s)	259, 274, 295, 346, 349, 877, 1030, 1078
BstV2I	GAAGAC	1 cut(s)	776
BstX2I	RGATCY	1 cut(s)	631
BstYI	RGATCY	1 cut(s)	631
BsuRI	GGCC	2 cut(s)	161, 607
BtuMI	TCGCGA	1 cut(s)	417
Cac8I	GCNNGC	2 cut(s)	298, 525
CaiI	CAGNNNCTG	2 cut(s)	680, 923
CfoI	GCGC	1 cut(s)	795
Cfr10I	RCCGGY	1 cut(s)	194
CseI	GACGC	2 cut(s)	46, 352
Csp6I	GTAC	3 cut(s)	117, 585, 941
CviAII	CATG	1 cut(s)	1028
CviQI	GTAC	3 cut(s)	117, 585, 941
DdeI	CTNAG	8 cut(s)	243, 288, 372, 609, 673, 681, 879, 1140
DinI	GGCGCC	1 cut(s)	794
DpnI	GATC	6 cut(s)	414, 504, 633, 755, 916, 1015
DpnII	GATC	6 cut(s)	412, 502, 631, 753, 914, 1013
DraI	TTTAAA	1 cut(s)	628
DrdI	GACNNNNNNGTC	3 cut(s)	43, 70, 97
DseDI	GACNNNNNNGTC	3 cut(s)	43, 70, 97
Eam1104I	CTCTTC	2 cut(s)	238, 750
EarI	CTCTTC	2 cut(s)	238, 750
EciI	GGCGGA	1 cut(s)	181
Ecl136II	GAGCTC	1 cut(s)	11
Eco130I	CCWWGG	1 cut(s)	749
Eco24I	GRGCYC	1 cut(s)	13
Eco53kI	GAGCTC	1 cut(s)	11
Eco57I	CTGAAG	1 cut(s)	668
EcoICRI	GAGCTC	1 cut(s)	11
EcoRI	GAATTC	1 cut(s)	976
EcoRII	CCWGG	2 cut(s)	454, 1009
EcoT14I	CCWWGG	1 cut(s)	749
EcoT38I	GRGCYC	1 cut(s)	13
EgeI	GGCGCC	1 cut(s)	794
EheI	GGCGCC	1 cut(s)	794
ErhI	CCWWGG	1 cut(s)	749
FaeI	CATG	1 cut(s)	1031
FaiI	YATR	8 cut(s)	471, 542, 959, 1029, 1049, 1124, 1133, 1148
FaqI	GGGAC	4 cut(s)	10, 49, 76, 103
FatI	CATG	1 cut(s)	1027
FblI	GTMKAC	4 cut(s)	47, 74, 101, 176
FriOI	GRGCYC	1 cut(s)	13
FspBI	CTAG	2 cut(s)	827, 933
GlaI	GCGC	1 cut(s)	794
GsaI	CCCAGC	2 cut(s)	56, 83
GsuI	CTGGAG	1 cut(s)	839
HaeII	RGCGCY	1 cut(s)	796
HaeIII	GGCC	2 cut(s)	161, 607
HapII	CCGG	3 cut(s)	107, 158, 195
HgaI	GACGC	2 cut(s)	46, 352
HhaI	GCGC	1 cut(s)	795
Hin1I	GRCGYC	4 cut(s)	38, 179, 344, 793
Hin1II	CATG	1 cut(s)	1031
Hin6I	GCGC	1 cut(s)	793
HinP1I	GCGC	1 cut(s)	793
HincII	GTYRAC	4 cut(s)	48, 75, 102, 177
HindII	GTYRAC	4 cut(s)	48, 75, 102, 177
HindIII	AAGCTT	1 cut(s)	566
HinfI	GANTC	4 cut(s)	64, 91, 370, 1036
HpaII	CCGG	3 cut(s)	107, 158, 195
HphI	GGTGA	3 cut(s)	529, 817, 875
Hpy166II	GTNNAC	4 cut(s)	48, 75, 102, 177
Hpy188I	TCNGA	5 cut(s)	8, 375, 538, 676, 845
Hpy188III	TCNNGA	7 cut(s)	34, 61, 88, 416, 578, 712, 918
Hpy8I	GTNNAC	4 cut(s)	48, 75, 102, 177
HpyAV	CCTTC	5 cut(s)	40, 159, 358, 566, 677
HpyCH4IV	ACGT	2 cut(s)	179, 708
HpyCH4V	TGCA	4 cut(s)	185, 691, 893, 1051
HpyF3I	CTNAG	8 cut(s)	243, 288, 372, 609, 673, 681, 879, 1140
HpySE526I	ACGT	2 cut(s)	179, 708
Hsp92I	GRCGYC	4 cut(s)	38, 179, 344, 793
Hsp92II	CATG	1 cut(s)	1031
HspAI	GCGC	1 cut(s)	793
KasI	GGCGCC	1 cut(s)	792
Kzo9I	GATC	6 cut(s)	412, 502, 631, 753, 914, 1013
LmnI	GCTCC	8 cut(s)	8, 215, 322, 385, 394, 657, 920, 1167
Lsp1109I	GCAGC	8 cut(s)	259, 274, 295, 346, 349, 877, 1030, 1078
LweI	GCATC	3 cut(s)	427, 667, 705
MaeI	CTAG	2 cut(s)	827, 933
MaeII	ACGT	2 cut(s)	179, 708
MaeIII	GTNAC	3 cut(s)	496, 895, 1059
MalI	GATC	6 cut(s)	414, 504, 633, 755, 916, 1015
MboI	GATC	6 cut(s)	412, 502, 631, 753, 914, 1013
MboII	GAAGA	6 cut(s)	9, 117, 225, 737, 776, 998
MfeI	CAATTG	2 cut(s)	362, 429
MflI	RGATCY	1 cut(s)	631
MhlI	GDGCHC	1 cut(s)	13
MluCI	AATT	4 cut(s)	355, 362, 429, 976
Mly113I	GGCGCC	1 cut(s)	793
MlyI	GAGTC	4 cut(s)	58, 85, 364, 1045
MmeI	TCCRAC	1 cut(s)	868
MroXI	GAANNNNTTC	1 cut(s)	666
MseI	TTAA	4 cut(s)	477, 627, 854, 953
MspA1I	CMGCKG	1 cut(s)	907
MspI	CCGG	3 cut(s)	107, 158, 195
MspR9I	CCNGG	4 cut(s)	107, 158, 456, 1011
MunI	CAATTG	2 cut(s)	362, 429
Mva1269I	GAATGC	1 cut(s)	110
MvaI	CCWGG	2 cut(s)	456, 1011
MvnI	CGCG	1 cut(s)	417
NarI	GGCGCC	1 cut(s)	793
NciI	CCSGG	2 cut(s)	107, 158
NdeII	GATC	6 cut(s)	412, 502, 631, 753, 914, 1013
NlaIII	CATG	1 cut(s)	1031
NlaIV	GGNNCC	4 cut(s)	211, 318, 381, 794
NruI	TCGCGA	1 cut(s)	417
PcsI	WCGNNNNNNNCGW	6 cut(s)	44, 53, 80, 125, 134, 414
PctI	GAATGC	1 cut(s)	110
PdmI	GAANNNNTTC	1 cut(s)	666
PflFI	GACNNNGTC	3 cut(s)	40, 67, 94
PfoI	TCCNGGA	1 cut(s)	1009
Ple19I	CGATCG	1 cut(s)	415
PleI	GAGTC	4 cut(s)	58, 85, 364, 1044
PluTI	GGCGCC	1 cut(s)	796
PpsI	GAGTC	4 cut(s)	58, 85, 364, 1044
PsiI	TTATAA	1 cut(s)	1133
Psp124BI	GAGCTC	1 cut(s)	13
Psp6I	CCWGG	2 cut(s)	454, 1009
PspFI	CCCAGC	2 cut(s)	52, 79
PspGI	CCWGG	2 cut(s)	454, 1009
PspN4I	GGNNCC	4 cut(s)	211, 318, 381, 794
PstI	CTGCAG	1 cut(s)	895
PstNI	CAGNNNCTG	2 cut(s)	680, 923
PsuI	RGATCY	1 cut(s)	631
PsyI	GACNNNGTC	3 cut(s)	40, 67, 94
PvuI	CGATCG	1 cut(s)	415
PvuII	CAGCTG	1 cut(s)	907
RruI	TCGCGA	1 cut(s)	417
RsaI	GTAC	3 cut(s)	118, 586, 942
RsaNI	GTAC	3 cut(s)	117, 585, 941
SacI	GAGCTC	1 cut(s)	13
SalI	GTCGAC	4 cut(s)	46, 73, 100, 175
SaqAI	TTAA	4 cut(s)	477, 627, 854, 953
Sau3AI	GATC	6 cut(s)	412, 502, 631, 753, 914, 1013
ScaI	AGTACT	1 cut(s)	586
SchI	GAGTC	4 cut(s)	58, 85, 364, 1045
ScrFI	CCNGG	4 cut(s)	107, 158, 456, 1011
SduI	GDGCHC	1 cut(s)	13
SfaNI	GCATC	3 cut(s)	427, 667, 705
SfcI	CTRYAG	1 cut(s)	891
SfoI	GGCGCC	1 cut(s)	794
SgrAI	CRCCGGYG	1 cut(s)	194
SgrDI	CGTCGACG	1 cut(s)	175
Sse9I	AATT	4 cut(s)	355, 362, 429, 976
SsiI	CCGC	6 cut(s)	192, 207, 300, 332, 506, 990
SspDI	GGCGCC	1 cut(s)	792
SspMI	CTAG	2 cut(s)	827, 933
SstI	GAGCTC	1 cut(s)	13
StyD4I	CCNGG	4 cut(s)	105, 156, 454, 1009
StyI	CCWWGG	1 cut(s)	749
TaiI	ACGT	2 cut(s)	182, 711
TaqI	TCGA	7 cut(s)	47, 74, 101, 128, 152, 176, 756
TasI	AATT	4 cut(s)	355, 362, 429, 976
TatI	WGTACW	1 cut(s)	584
TauI	GCSGC	3 cut(s)	210, 303, 334
Tru1I	TTAA	4 cut(s)	477, 627, 854, 953
Tru9I	TTAA	4 cut(s)	477, 627, 854, 953
TseI	GCWGC	8 cut(s)	247, 262, 283, 334, 337, 890, 1043, 1066
TspDTI	ATGAA	3 cut(s)	675, 872, 1044
TspGWI	ACGGA	6 cut(s)	57, 84, 162, 216, 309, 1088
Tth111I	GACNNNGTC	3 cut(s)	40, 67, 94
XapI	RAATTY	1 cut(s)	976
XmiI	GTMKAC	4 cut(s)	47, 74, 101, 176
XmnI	GAANNNNTTC	1 cut(s)	666
XspI	CTAG	2 cut(s)	827, 933
ZraI	GACGTC	1 cut(s)	180
ZrmI	AGTACT	1 cut(s)	586

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