Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr13

Orthogroup ID

OG0016608

Physical Location & Seq

Genomic Coordinates Reverse (-)

8542165 .. 8545060

Gene Structure 2896 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD13G1116800.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 798 bp

ATGGCTCCCGTCGCTCCTCTCCCTTTCTCTCTCGCCGATCGCGATATTCAAGCAATTGTTGACGCTTACAAGGACGAGCCTGGAAACCCTAAATATGCTTTTAAGCATTTGCTGTTTAGCGTAACTGATCCGCAGTTCAGGGTGAAGCCTGCTGGTGTATCGGATATTATGTGGGCAGAGGCTATGGCGAAGCTCGAAGGTCTGGAAAGTACTGACAGGGAACGCCTGTGGCCTCAGCTTGTTCAGGGATTTAAAGATCTCTCTCAACGCCTGAAGCTCCAAGATGAAGTCCTTCTTTCAGATGCTGAGAGATTGCAAATGACCCAAAGCAATGTCAAGATGCTTCAAAGGCATTTTCAAGCTGATACTCTTCCTTGGATCGAGAGAATGAGACAAAAAGAACAAGGTCTTCAAAGGCGCCTTTTGAGGGTGATGAGAATACTGGAGGCACTAGAGGGCAAGGGTTTCCGACTGCCCTTAATGAAAGGTGAAGTAGAATTGGCCGAGAAGTTAGCTGCAGTTACTAGACAGTTGAAAGGATCCGGAGCTGAGCTTACTAGGAGGGTACAAAACCTGCTAACCATATCCCGTGTCCAAGAGAATTCTATTGGTGCGGGTGCTTTAGGTTATCTTCCAGGATCAACCAAAATCCATGAACAGAGTCTCGCTGCTATGCAAGAGGTGTTACAACAGCAGACGGAAGCTATTGCGAGACTAGGCAATGTTTTGAAGCGAGATATCCGGGATATGGAGATTATAATGGCAGAGGATACAGAAACAACAGAGAACGGAAGCTAA

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

266

Amino Acids

29.95

Weight (kDa)

6.38

Isoelectric Point (pI)

40.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Nup54	PF13874	49 - 193	2e-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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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)	758
Acc36I	ACCTGC	1 cut(s)	582
AccB1I	GGYRCC	1 cut(s)	417
AccII	CGCG	1 cut(s)	42
AccIII	TCCGGA	1 cut(s)	542
AciI	CCGC	2 cut(s)	131, 614
AclWI	GGATC	5 cut(s)	122, 386, 534, 547, 646
AcoI	YGGCCR	1 cut(s)	501
AcsI	RAATTY	1 cut(s)	601
AcuI	CTGAAG	1 cut(s)	293
AcyI	GRCGYC	1 cut(s)	418
AfaI	GTAC	2 cut(s)	211, 567
AfiI	CCNNNNNNNGG	2 cut(s)	427, 748
AgsI	TTSAA	6 cut(s)	50, 347, 359, 413, 535, 730
AjnI	CCWGG	2 cut(s)	79, 634
AluBI	AGCT	9 cut(s)	193, 238, 277, 362, 515, 548, 553, 704, 795
AluI	AGCT	9 cut(s)	193, 238, 277, 362, 515, 548, 553, 704, 795
Alw26I	GTCTC	3 cut(s)	385, 668, 706
AlwI	GGATC	5 cut(s)	122, 386, 534, 547, 646
AlwNI	CAGNNNCTG	1 cut(s)	305
Aor13HI	TCCGGA	1 cut(s)	542
AoxI	GGCC	2 cut(s)	230, 501
ApeKI	GCWGC	2 cut(s)	515, 668
ApoI	RAATTY	1 cut(s)	601
Asp700I	GAANNNNTTC	1 cut(s)	291
AspLEI	GCGC	1 cut(s)	420
AsuC2I	CCSGG	1 cut(s)	743
AsuHPI	GGTGA	3 cut(s)	154, 442, 500
BamHI	GGATCC	1 cut(s)	539
BanI	GGYRCC	1 cut(s)	417
BbsI	GAAGAC	1 cut(s)	401
BbvCI	CCTCAGC	1 cut(s)	234
BbvI	GCAGC	2 cut(s)	502, 655
BciT130I	CCWGG	2 cut(s)	81, 636
BciVI	GTATCC	1 cut(s)	763
BcnI	CCSGG	1 cut(s)	743
BcoDI	GTCTC	3 cut(s)	385, 668, 706
BfaI	CTAG	4 cut(s)	452, 525, 558, 716
BfmI	CTRYAG	1 cut(s)	516
BfoI	RGCGCY	1 cut(s)	421
BfuAI	ACCTGC	1 cut(s)	582
BfuI	GTATCC	1 cut(s)	763
BglII	AGATCT	1 cut(s)	256
BisI	GCNGC	2 cut(s)	516, 669
BlpI	GCTNAGC	1 cut(s)	549
BlsI	GCNGC	2 cut(s)	517, 670
BmcAI	AGTACT	1 cut(s)	211
Bme1390I	CCNGG	3 cut(s)	81, 636, 743
BmiI	GGNNCC	3 cut(s)	6, 419, 541
BmrFI	CCNGG	3 cut(s)	81, 636, 743
BmsI	GCATC	2 cut(s)	292, 330
BpiI	GAAGAC	1 cut(s)	401
BpmI	CTGGAG	1 cut(s)	464
Bpu10I	CCTNAGC	1 cut(s)	234
Bpu1102I	GCTNAGC	1 cut(s)	549
BpuMI	CCSGG	1 cut(s)	743
BsaHI	GRCGYC	1 cut(s)	418
BsaJI	CCNNGG	1 cut(s)	374
BsaWI	WCCGGW	1 cut(s)	542
Bsc4I	CCNNNNNNNGG	2 cut(s)	427, 748
Bse1I	ACTGG	1 cut(s)	447
Bse3DI	GCAATG	2 cut(s)	337, 727
BseAI	TCCGGA	1 cut(s)	542
BseBI	CCWGG	2 cut(s)	81, 636
BseDI	CCNNGG	1 cut(s)	374
BseLI	CCNNNNNNNGG	2 cut(s)	427, 748
BseMI	GCAATG	2 cut(s)	337, 727
BseMII	CTCAG	3 cut(s)	248, 297, 540
BseNI	ACTGG	1 cut(s)	447
BseRI	GAGGAG	1 cut(s)	6
BseXI	GCAGC	2 cut(s)	502, 655
Bsh1236I	CGCG	1 cut(s)	42
Bsh1285I	CGRYCG	1 cut(s)	40
BshFI	GGCC	2 cut(s)	232, 503
BshNI	GGYRCC	1 cut(s)	417
BsiEI	CGRYCG	1 cut(s)	40
BsiSI	CCGG	2 cut(s)	543, 742
BslI	CCNNNNNNNGG	2 cut(s)	427, 748
BsmAI	GTCTC	3 cut(s)	385, 668, 706
BsnI	GGCC	2 cut(s)	232, 503
Bsp13I	TCCGGA	1 cut(s)	542
Bsp143I	GATC	6 cut(s)	37, 127, 256, 378, 539, 638
Bsp1720I	GCTNAGC	1 cut(s)	549
Bsp68I	TCGCGA	1 cut(s)	42
BspACI	CCGC	2 cut(s)	131, 614
BspANI	GGCC	2 cut(s)	232, 503
BspCNI	CTCAG	3 cut(s)	247, 298, 541
BspEI	TCCGGA	1 cut(s)	542
BspFNI	CGCG	1 cut(s)	42
BspLI	GGNNCC	3 cut(s)	6, 419, 541
BspMAI	CTGCAG	1 cut(s)	520
BspMI	ACCTGC	1 cut(s)	582
BspPI	GGATC	5 cut(s)	122, 386, 534, 547, 646
BspT107I	GGYRCC	1 cut(s)	417
BsrDI	GCAATG	2 cut(s)	337, 727
BsrI	ACTGG	1 cut(s)	447
BssECI	CCNNGG	1 cut(s)	374
BssMI	GATC	6 cut(s)	37, 127, 256, 378, 539, 638
BssNI	GRCGYC	1 cut(s)	418
BssT1I	CCWWGG	1 cut(s)	374
Bst2UI	CCWGG	2 cut(s)	81, 636
Bst4CI	ACNGT	1 cut(s)	531
Bst6I	CTCTTC	1 cut(s)	375
BstACI	GRCGYC	1 cut(s)	418
BstC8I	GCNNGC	1 cut(s)	150
BstDEI	CTNAG	3 cut(s)	234, 306, 549
BstFNI	CGCG	1 cut(s)	42
BstH2I	RGCGCY	1 cut(s)	421
BstHHI	GCGC	1 cut(s)	420
BstKTI	GATC	6 cut(s)	40, 130, 259, 381, 542, 641
BstMAI	GTCTC	3 cut(s)	385, 668, 706
BstMBI	GATC	6 cut(s)	37, 127, 256, 378, 539, 638
BstMCI	CGRYCG	1 cut(s)	40
BstMWI	GCNNNNNNNGC	2 cut(s)	11, 349
BstNI	CCWGG	2 cut(s)	81, 636
BstSCI	CCNGG	3 cut(s)	79, 634, 741
BstSFI	CTRYAG	1 cut(s)	516
BstUI	CGCG	1 cut(s)	42
BstV1I	GCAGC	2 cut(s)	502, 655
BstV2I	GAAGAC	1 cut(s)	401
BstX2I	RGATCY	2 cut(s)	256, 539
BstYI	RGATCY	2 cut(s)	256, 539
BsuI	GTATCC	1 cut(s)	763
BsuRI	GGCC	2 cut(s)	232, 503
BtuMI	TCGCGA	1 cut(s)	42
BveI	ACCTGC	1 cut(s)	582
Cac8I	GCNNGC	1 cut(s)	150
CaiI	CAGNNNCTG	1 cut(s)	305
CfoI	GCGC	1 cut(s)	420
CseI	GACGC	1 cut(s)	71
Csp6I	GTAC	2 cut(s)	210, 566
CviAII	CATG	1 cut(s)	653
CviQI	GTAC	2 cut(s)	210, 566
DdeI	CTNAG	3 cut(s)	234, 306, 549
DinI	GGCGCC	1 cut(s)	419
DpnI	GATC	6 cut(s)	39, 129, 258, 380, 541, 640
DpnII	GATC	6 cut(s)	37, 127, 256, 378, 539, 638
DraI	TTTAAA	1 cut(s)	253
EaeI	YGGCCR	1 cut(s)	501
Eam1104I	CTCTTC	1 cut(s)	375
EarI	CTCTTC	1 cut(s)	375
Eco130I	CCWWGG	1 cut(s)	374
Eco32I	GATATC	1 cut(s)	739
Eco57I	CTGAAG	1 cut(s)	293
EcoRI	GAATTC	1 cut(s)	601
EcoRII	CCWGG	2 cut(s)	79, 634
EcoRV	GATATC	1 cut(s)	739
EcoT14I	CCWWGG	1 cut(s)	374
EgeI	GGCGCC	1 cut(s)	419
EheI	GGCGCC	1 cut(s)	419
ErhI	CCWWGG	1 cut(s)	374
FaeI	CATG	1 cut(s)	656
FaiI	YATR	8 cut(s)	96, 170, 185, 584, 654, 674, 749, 758
FalI	AAGNNNNNCTT	2 cut(s)	279, 311
FatI	CATG	1 cut(s)	652
FauI	CCCGC	1 cut(s)	607
Fnu4HI	GCNGC	2 cut(s)	516, 669
Fsp4HI	GCNGC	2 cut(s)	516, 669
FspBI	CTAG	4 cut(s)	452, 525, 558, 716
GlaI	GCGC	1 cut(s)	419
GluI	GCNGC	2 cut(s)	516, 669
GsuI	CTGGAG	1 cut(s)	464
HaeII	RGCGCY	1 cut(s)	421
HaeIII	GGCC	2 cut(s)	232, 503
HapII	CCGG	2 cut(s)	543, 742
HgaI	GACGC	1 cut(s)	71
HhaI	GCGC	1 cut(s)	420
Hin1I	GRCGYC	1 cut(s)	418
Hin1II	CATG	1 cut(s)	656
Hin6I	GCGC	1 cut(s)	418
HinP1I	GCGC	1 cut(s)	418
HincII	GTYRAC	1 cut(s)	61
HindII	GTYRAC	1 cut(s)	61
HinfI	GANTC	1 cut(s)	661
HpaII	CCGG	2 cut(s)	543, 742
HphI	GGTGA	3 cut(s)	154, 442, 500
Hpy166II	GTNNAC	1 cut(s)	61
Hpy188I	TCNGA	3 cut(s)	163, 301, 470
Hpy188III	TCNNGA	5 cut(s)	41, 203, 337, 382, 543
Hpy8I	GTNNAC	1 cut(s)	61
Hpy99I	CGWCG	1 cut(s)	14
HpyAV	CCTTC	2 cut(s)	191, 302
HpyCH4III	ACNGT	1 cut(s)	531
HpyCH4V	TGCA	3 cut(s)	316, 518, 676
HpyF10VI	GCNNNNNNNGC	2 cut(s)	11, 349
HpyF3I	CTNAG	3 cut(s)	234, 306, 549
Hsp92I	GRCGYC	1 cut(s)	418
Hsp92II	CATG	1 cut(s)	656
HspAI	GCGC	1 cut(s)	418
KasI	GGCGCC	1 cut(s)	417
Kpn2I	TCCGGA	1 cut(s)	542
Kzo9I	GATC	6 cut(s)	37, 127, 256, 378, 539, 638
LmnI	GCTCC	4 cut(s)	10, 19, 282, 545
Lsp1109I	GCAGC	2 cut(s)	502, 655
LweI	GCATC	2 cut(s)	292, 330
MaeI	CTAG	4 cut(s)	452, 525, 558, 716
MaeIII	GTNAC	3 cut(s)	121, 520, 684
MalI	GATC	6 cut(s)	39, 129, 258, 380, 541, 640
MboI	GATC	6 cut(s)	37, 127, 256, 378, 539, 638
MboII	GAAGA	3 cut(s)	362, 401, 623
MfeI	CAATTG	1 cut(s)	54
MflI	RGATCY	2 cut(s)	256, 539
MluCI	AATT	3 cut(s)	54, 497, 601
Mly113I	GGCGCC	1 cut(s)	418
MlyI	GAGTC	1 cut(s)	670
MmeI	TCCRAC	1 cut(s)	493
MnlI	CCTC	9 cut(s)	27, 172, 243, 420, 439, 448, 555, 673, 760
MroI	TCCGGA	1 cut(s)	542
MroXI	GAANNNNTTC	1 cut(s)	291
MseI	TTAA	3 cut(s)	102, 252, 479
MspI	CCGG	2 cut(s)	543, 742
MspR9I	CCNGG	3 cut(s)	81, 636, 743
MunI	CAATTG	1 cut(s)	54
MvaI	CCWGG	2 cut(s)	81, 636
MvnI	CGCG	1 cut(s)	42
MwoI	GCNNNNNNNGC	2 cut(s)	11, 349
NarI	GGCGCC	1 cut(s)	418
NciI	CCSGG	1 cut(s)	743
NdeII	GATC	6 cut(s)	37, 127, 256, 378, 539, 638
NlaIII	CATG	1 cut(s)	656
NlaIV	GGNNCC	3 cut(s)	6, 419, 541
NmeAIII	GCCGAG	1 cut(s)	529
NruI	TCGCGA	1 cut(s)	42
PcsI	WCGNNNNNNNCGW	1 cut(s)	39
PdmI	GAANNNNTTC	1 cut(s)	291
PfoI	TCCNGGA	2 cut(s)	634, 741
PkrI	GCNGC	2 cut(s)	517, 670
Ple19I	CGATCG	1 cut(s)	40
PleI	GAGTC	1 cut(s)	669
PluTI	GGCGCC	1 cut(s)	421
PpsI	GAGTC	1 cut(s)	669
PsiI	TTATAA	1 cut(s)	758
Psp6I	CCWGG	2 cut(s)	79, 634
PspGI	CCWGG	2 cut(s)	79, 634
PspN4I	GGNNCC	3 cut(s)	6, 419, 541
PstI	CTGCAG	1 cut(s)	520
PstNI	CAGNNNCTG	1 cut(s)	305
PsuI	RGATCY	2 cut(s)	256, 539
PvuI	CGATCG	1 cut(s)	40
RruI	TCGCGA	1 cut(s)	42
RsaI	GTAC	2 cut(s)	211, 567
RsaNI	GTAC	2 cut(s)	210, 566
SaqAI	TTAA	3 cut(s)	102, 252, 479
SatI	GCNGC	2 cut(s)	516, 669
Sau3AI	GATC	6 cut(s)	37, 127, 256, 378, 539, 638
ScaI	AGTACT	1 cut(s)	211
SchI	GAGTC	1 cut(s)	670
ScrFI	CCNGG	3 cut(s)	81, 636, 743
SfaNI	GCATC	2 cut(s)	292, 330
SfcI	CTRYAG	1 cut(s)	516
SfoI	GGCGCC	1 cut(s)	419
Sse9I	AATT	3 cut(s)	54, 497, 601
SsiI	CCGC	2 cut(s)	131, 614
SspDI	GGCGCC	1 cut(s)	417
SspMI	CTAG	4 cut(s)	452, 525, 558, 716
StyD4I	CCNGG	3 cut(s)	79, 634, 741
StyI	CCWWGG	1 cut(s)	374
TaaI	ACNGT	1 cut(s)	531
TaqI	TCGA	2 cut(s)	195, 381
TasI	AATT	3 cut(s)	54, 497, 601
TatI	WGTACW	1 cut(s)	209
Tru1I	TTAA	3 cut(s)	102, 252, 479
Tru9I	TTAA	3 cut(s)	102, 252, 479
TseI	GCWGC	2 cut(s)	515, 668
TspDTI	ATGAA	3 cut(s)	300, 497, 669
TspGWI	ACGGA	1 cut(s)	713
XapI	RAATTY	1 cut(s)	601
XmnI	GAANNNNTTC	1 cut(s)	291
XspI	CTAG	4 cut(s)	452, 525, 558, 716
ZrmI	AGTACT	1 cut(s)	211

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