Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr03

Orthogroup ID

OG0007333

Physical Location & Seq

Genomic Coordinates Reverse (-)

7321172 .. 7324108

Gene Structure 2937 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD03G1088700.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 969 bp

ATGGCTTATGAAGACTTTCGTACTTCAGCGTTTGAGCAAAGTTACCGTTGTTACCCTGTATCGTTTATTGAGAAGCCACATCTGGAGAAGGGTGATAAAATTATAATGCCTCCCTCAGCTCTTGACCGCCTCGCATCTTTGCAGATCGACTACCCTATGTTGTTTGAACTTAACAATCCTACTGTTGGACGAGTTACTCATTGTGGGGTTTTGGAATTTGTTGCTGATGAGGGTCTAATATATTTACCATACTGGATGATGCAGAACATGCTCCTTCAAGAGGGAGACATATGTCAAGTAAAAAACAAAAGCCTAGTAAAGGGAACATATGTGAAGTTGCAGCCTCACACTACGGACTTCCTTGATATCTCAAACCCCAAAGCCATTTTGGAAACTACATTGAGGAGCTACTCTTGCTTAACCACTGGTGATACTATCATGGTTCCTTATAACAATAGGCAGTATTACATTAACATAGTTGAAACAAAACCCTCCCCTGCAATCAGTATAATTGAGACGGACTGTGAGGTTGATTTCGCCCCTCCGCTTGATTATGTGGAACCGGTAAAACCTGCACCACCTACTTTGTCTAAGAAGAGACCACAAGAAGCTGAAGAGGTACAACCTGAAAAGATACCAAAATTCAATCCCTTCACTGGTTCAGCAAGACGACTGGATGGAAAACCGATGACAGAATCAGTTGCACCAGTTTCCGCTCCCATACTGAAGCAGCACCAACAGGAGAGTGAAAATGGAACCAAGGATTCTAAGTCATCAACTTGTGCCGCACGTAAATCTGGAAAGCTTGTGTTCGGTTCAAATGGCGACCTACCCATGAAAGAAACCCCAAAAGTTGCCCCAAAGAACGGCAAGCCAGAGCCATCTAAGAAGGCAGAAGATACACCTCAGAAGGCAGAAGAGCCAAAGTTCCAAGCATTCACGGGGAAGAAGTATTCGCTGAAAGGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001817 GO:0001818 GO:0002682 GO:0002683 GO:0002697 GO:0002698 GO:0002831 GO:0002832 GO:0003674 GO:0005102 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0006508 GO:0006511 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009966 GO:0009968 GO:0009987 GO:0010646 GO:0010648 GO:0012505 GO:0016020 GO:0019538 GO:0019899 GO:0019941 GO:0023051 GO:0023057 GO:0030163 GO:0031347 GO:0031348 GO:0031984 GO:0032101 GO:0032102 GO:0032479 GO:0032480 GO:0032991 GO:0034098 GO:0036501 GO:0039531 GO:0039532 GO:0039535 GO:0039536 GO:0042175 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0043900 GO:0043901 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0044877 GO:0045088 GO:0048519 GO:0048523 GO:0048583 GO:0048585 GO:0050687 GO:0050688 GO:0050776 GO:0050789 GO:0050794 GO:0051117 GO:0051239 GO:0051241 GO:0051603 GO:0065007 GO:0071704 GO:0080134 GO:0098796 GO:0098827 GO:1901564 GO:1901565 GO:1901575 GO:1902531 GO:1902532

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

UFD1

Protein Analysis

323

Amino Acids

36.01

Weight (kDa)

6.91

Isoelectric Point (pI)

45.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N1	PF03152	11 - 105	3.6e-39	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 1
UFD1_N2	PF24842	107 - 182	4e-37	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 2

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: OG0007333)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G29070 AT2G29070 AT2G29070
fragaria_vesca	FvH4_3g36770 FvH4_3g36770
malus_domestica	MD03G1088700.v1.1 MD11G1097700.v1.1
prunus_persica	Prupe.6G073100_v2.0.a1 Prupe.6G073100_v2.0.a1
pyrus_communis	pycom03g07030 pycom11g08240
rosa_chinensis	RchiOBHm_Chr5g0065821
rosa_laevigata	RLG00000035819
rosa_multiflora	Rmu_sc0042868.1_g000003
rosa_roxburghii	Rroxscaffold_1G00015330
rosa_rugosa	Rorug05G0374000 Rorug05G0374000 Rorug05G0374000 Rorug05G0374000 Rorug05G0374000
rosa_samantha	Rh5AG432700 Rh5BG449000 Rh5CG471200 Rh5DG462500
rosa_wichuraiana	Rw5G040580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	104, 450
Acc36I	ACCTGC	1 cut(s)	580
AccBSI	CCGCTC	1 cut(s)	716
AciI	CCGC	4 cut(s)	127, 545, 714, 786
AcsI	RAATTY	2 cut(s)	215, 641
AcuI	CTGAAG	3 cut(s)	9, 633, 746
AfaI	GTAC	2 cut(s)	22, 621
AfiI	CCNNNNNNNGG	5 cut(s)	185, 280, 319, 656, 866
AgeI	ACCGGT	1 cut(s)	562
AgsI	TTSAA	5 cut(s)	167, 278, 482, 646, 819
AluBI	AGCT	4 cut(s)	119, 408, 611, 805
AluI	AGCT	4 cut(s)	119, 408, 611, 805
Alw26I	GTCTC	3 cut(s)	279, 509, 592
ApeKI	GCWGC	2 cut(s)	340, 730
ApoI	RAATTY	2 cut(s)	215, 641
AsiGI	ACCGGT	1 cut(s)	562
Asp700I	GAANNNNTTC	1 cut(s)	15
AsuHPI	GGTGA	2 cut(s)	104, 440
BbsI	GAAGAC	1 cut(s)	18
BbvCI	CCTCAGC	1 cut(s)	115
BbvI	GCAGC	2 cut(s)	352, 742
BccI	CCATC	2 cut(s)	671, 889
BceAI	ACGGC	1 cut(s)	883
BcoDI	GTCTC	3 cut(s)	279, 509, 592
BfaI	CTAG	1 cut(s)	314
BfuAI	ACCTGC	1 cut(s)	580
BisI	GCNGC	3 cut(s)	341, 731, 786
BlsI	GCNGC	3 cut(s)	342, 732, 787
BmiI	GGNNCC	3 cut(s)	444, 561, 757
BmsI	GCATC	2 cut(s)	143, 249
BoxI	GACNNNNGTC	1 cut(s)	291
BpiI	GAAGAC	1 cut(s)	18
BpmI	CTGGAG	1 cut(s)	104
Bpu10I	CCTNAGC	1 cut(s)	115
BsaAI	YACGTR	1 cut(s)	791
BsaI	GGTCTC	1 cut(s)	592
BsaJI	CCNNGG	1 cut(s)	759
BsaWI	WCCGGW	1 cut(s)	562
Bsc4I	CCNNNNNNNGG	5 cut(s)	185, 280, 319, 656, 866
Bse118I	RCCGGY	1 cut(s)	562
Bse1I	ACTGG	5 cut(s)	257, 430, 661, 678, 707
BseDI	CCNNGG	1 cut(s)	759
BseGI	GGATG	2 cut(s)	261, 682
BseLI	CCNNNNNNNGG	5 cut(s)	185, 280, 319, 656, 866
BseMII	CTCAG	2 cut(s)	129, 920
BseNI	ACTGG	5 cut(s)	257, 430, 661, 678, 707
BseRI	GAGGAG	1 cut(s)	418
BseXI	GCAGC	2 cut(s)	352, 742
BsgI	GTGCAG	1 cut(s)	558
BshTI	ACCGGT	1 cut(s)	562
BsiSI	CCGG	1 cut(s)	563
BslI	CCNNNNNNNGG	5 cut(s)	185, 280, 319, 656, 866
BsmAI	GTCTC	3 cut(s)	279, 509, 592
BsmBI	CGTCTC	1 cut(s)	509
BsmI	GAATGC	1 cut(s)	935
Bso31I	GGTCTC	1 cut(s)	592
Bsp143I	GATC	1 cut(s)	144
BspACI	CCGC	4 cut(s)	127, 545, 714, 786
BspCNI	CTCAG	2 cut(s)	128, 919
BspLI	GGNNCC	3 cut(s)	444, 561, 757
BspMI	ACCTGC	1 cut(s)	580
BspQI	GCTCTTC	1 cut(s)	912
BspTNI	GGTCTC	1 cut(s)	592
BsrBI	CCGCTC	1 cut(s)	716
BsrFI	RCCGGY	1 cut(s)	562
BsrI	ACTGG	5 cut(s)	257, 430, 661, 678, 707
BssAI	RCCGGY	1 cut(s)	562
BssECI	CCNNGG	1 cut(s)	759
BssMI	GATC	1 cut(s)	144
BssT1I	CCWWGG	1 cut(s)	759
Bst4CI	ACNGT	3 cut(s)	47, 184, 524
Bst6I	CTCTTC	3 cut(s)	590, 609, 912
BstAPI	GCANNNNNTGC	1 cut(s)	268
BstBAI	YACGTR	1 cut(s)	791
BstC8I	GCNNGC	1 cut(s)	872
BstDEI	CTNAG	5 cut(s)	115, 591, 768, 885, 906
BstENI	CCTNNNNNAGG	2 cut(s)	278, 317
BstF5I	GGATG	2 cut(s)	261, 682
BstKTI	GATC	1 cut(s)	147
BstMAI	GTCTC	3 cut(s)	279, 509, 592
BstMBI	GATC	1 cut(s)	144
BstMWI	GCNNNNNNNGC	2 cut(s)	268, 414
BstNSI	RCATGY	1 cut(s)	271
BstPAI	GACNNNNGTC	1 cut(s)	291
BstV1I	GCAGC	2 cut(s)	352, 742
BstV2I	GAAGAC	1 cut(s)	18
BtsCI	GGATG	2 cut(s)	261, 682
BtsIMutI	CAGTG	2 cut(s)	423, 654
BveI	ACCTGC	1 cut(s)	580
Cac8I	GCNNGC	1 cut(s)	872
Cfr10I	RCCGGY	1 cut(s)	562
Csp6I	GTAC	2 cut(s)	21, 620
CspAI	ACCGGT	1 cut(s)	562
CspCI	CAANNNNNGTGG	2 cut(s)	567, 602
CviAII	CATG	3 cut(s)	268, 439, 835
CviQI	GTAC	2 cut(s)	21, 620
DdeI	CTNAG	5 cut(s)	115, 591, 768, 885, 906
DpnI	GATC	1 cut(s)	146
DpnII	GATC	1 cut(s)	144
Eam1104I	CTCTTC	3 cut(s)	590, 609, 912
EarI	CTCTTC	3 cut(s)	590, 609, 912
Eco130I	CCWWGG	1 cut(s)	759
Eco31I	GGTCTC	1 cut(s)	592
Eco32I	GATATC	1 cut(s)	367
Eco57I	CTGAAG	3 cut(s)	9, 633, 746
EcoNI	CCTNNNNNAGG	2 cut(s)	278, 317
EcoRV	GATATC	1 cut(s)	367
EcoT14I	CCWWGG	1 cut(s)	759
ErhI	CCWWGG	1 cut(s)	759
Esp3I	CGTCTC	1 cut(s)	509
FaeI	CATG	3 cut(s)	271, 442, 838
FatI	CATG	3 cut(s)	267, 438, 834
FauNDI	CATATG	2 cut(s)	290, 328
Fnu4HI	GCNGC	3 cut(s)	341, 731, 786
FokI	GGATG	2 cut(s)	268, 689
Fsp4HI	GCNGC	3 cut(s)	341, 731, 786
FspBI	CTAG	1 cut(s)	314
GluI	GCNGC	3 cut(s)	341, 731, 786
GsuI	CTGGAG	1 cut(s)	104
HapII	CCGG	1 cut(s)	563
Hin1II	CATG	3 cut(s)	271, 442, 838
HindIII	AAGCTT	1 cut(s)	803
HinfI	GANTC	2 cut(s)	695, 764
HpaII	CCGG	1 cut(s)	563
HphI	GGTGA	2 cut(s)	104, 440
Hpy188I	TCNGA	1 cut(s)	909
Hpy188III	TCNNGA	4 cut(s)	83, 122, 278, 798
HpyAV	CCTTC	5 cut(s)	82, 284, 661, 883, 904
HpyCH4III	ACNGT	3 cut(s)	47, 184, 524
HpyCH4IV	ACGT	1 cut(s)	790
HpyCH4V	TGCA	6 cut(s)	142, 262, 340, 500, 575, 704
HpyF10VI	GCNNNNNNNGC	2 cut(s)	268, 414
HpyF3I	CTNAG	5 cut(s)	115, 591, 768, 885, 906
HpySE526I	ACGT	1 cut(s)	790
Hsp92II	CATG	3 cut(s)	271, 442, 838
Kzo9I	GATC	1 cut(s)	144
LguI	GCTCTTC	1 cut(s)	912
LmnI	GCTCC	3 cut(s)	276, 405, 721
Lsp1109I	GCAGC	2 cut(s)	352, 742
LweI	GCATC	2 cut(s)	143, 249
MaeI	CTAG	1 cut(s)	314
MaeII	ACGT	1 cut(s)	790
MaeIII	GTNAC	3 cut(s)	41, 50, 193
MalI	GATC	1 cut(s)	146
MbiI	CCGCTC	1 cut(s)	716
MboI	GATC	1 cut(s)	144
MboII	GAAGA	6 cut(s)	23, 607, 626, 908, 929, 958
MluCI	AATT	4 cut(s)	99, 215, 510, 641
MmeI	TCCRAC	1 cut(s)	166
MroXI	GAANNNNTTC	1 cut(s)	15
MseI	TTAA	3 cut(s)	171, 419, 471
MspI	CCGG	1 cut(s)	563
Mva1269I	GAATGC	1 cut(s)	935
MwoI	GCNNNNNNNGC	2 cut(s)	268, 414
NdeI	CATATG	2 cut(s)	290, 328
NdeII	GATC	1 cut(s)	144
NlaIII	CATG	3 cut(s)	271, 442, 838
NlaIV	GGNNCC	3 cut(s)	444, 561, 757
NspI	RCATGY	1 cut(s)	271
PciSI	GCTCTTC	1 cut(s)	912
PctI	GAATGC	1 cut(s)	935
PdmI	GAANNNNTTC	1 cut(s)	15
PfeI	GAWTC	2 cut(s)	695, 764
PinAI	ACCGGT	1 cut(s)	562
PkrI	GCNGC	3 cut(s)	342, 732, 787
Ppu21I	YACGTR	1 cut(s)	791
PshAI	GACNNNNGTC	1 cut(s)	291
PsiI	TTATAA	2 cut(s)	104, 450
PspN4I	GGNNCC	3 cut(s)	444, 561, 757
RsaI	GTAC	2 cut(s)	22, 621
RsaNI	GTAC	2 cut(s)	21, 620
SapI	GCTCTTC	1 cut(s)	912
SaqAI	TTAA	3 cut(s)	171, 419, 471
SatI	GCNGC	3 cut(s)	341, 731, 786
Sau3AI	GATC	1 cut(s)	144
SfaNI	GCATC	2 cut(s)	143, 249
Sse9I	AATT	4 cut(s)	99, 215, 510, 641
SsiI	CCGC	4 cut(s)	127, 545, 714, 786
SspMI	CTAG	1 cut(s)	314
StyI	CCWWGG	1 cut(s)	759
TaaI	ACNGT	3 cut(s)	47, 184, 524
TaiI	ACGT	1 cut(s)	793
TaqI	TCGA	1 cut(s)	147
TasI	AATT	4 cut(s)	99, 215, 510, 641
TauI	GCSGC	1 cut(s)	788
TfiI	GAWTC	2 cut(s)	695, 764
Tru1I	TTAA	3 cut(s)	171, 419, 471
Tru9I	TTAA	3 cut(s)	171, 419, 471
TscAI	CASTG	2 cut(s)	430, 661
TseI	GCWGC	2 cut(s)	340, 730
TspDTI	ATGAA	2 cut(s)	24, 851
TspGWI	ACGGA	2 cut(s)	368, 533
TspRI	CASTG	2 cut(s)	430, 661
XagI	CCTNNNNNAGG	2 cut(s)	278, 317
XapI	RAATTY	2 cut(s)	215, 641
XceI	RCATGY	1 cut(s)	271
XcmI	CCANNNNNNNNNTGG	1 cut(s)	385
XmnI	GAANNNNTTC	1 cut(s)	15
XspI	CTAG	1 cut(s)	314

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