Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr13

Orthogroup ID

OG0006793

Physical Location & Seq

Genomic Coordinates Forward (+)

10816934 .. 10820078

Gene Structure 3145 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD13G1140300.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1143 bp

ATGGGTAGTCATGCAGTTGTAGTAGGCCTTCCTTCTCCTCCAAATCGTAACGGCTCTCTCTCTCCTCCAATTCCCACAACTTCTATAAGCAGCTCGAAGAAAAAGGATGGAATTGGAGAGCAAATGGCAAGGAAGCAGACAGGGGATGGTGGGTACAAGTGGCGTTTGGTGATTGCTTATGACGGCACCCGTTATGCAGGATGGCAATACCAGAGTTCACCGCCTACAATACAGTGCTTTGTGGAGAATGCTCTAATGGGCGCAACAAAGCTGGAAAGGAAGGATCTTCATTTCGTTGGTGCAAGTAGGACAGATAAAGGAGTACATGCCTGGGGTCAGGTTGCACACTTTGTCACACCTTTCAACTATGACAGCATTGAAAGCATTCATGCTGCTCTTAACGGTCTTCTTCCTGATGATATCCGAGTTAGGGAGATCAGCCCTGCAGTGCCTGAATTCCATGCTCGTTTTTCAGCGAGAAGCAAGATTTATCATTACAAAATATATAACGACACATTCATGGATCCATTTCAGCGTCACTATGCTTACCATAGTGCTCATAAGCTAAACGCCGCTGTTATGCGAGAAGCTTCAAAGTATTTTATTGGAAAGCATGATTTCTCTGCTTTTGTCAATGCCTCCCAGAAGGAACGAGTGCGTGATCCAGTGAAGGATATATTCCGTTTTGAGGTCATTGAAATGGGAGCTCTTTTACAGCTAGAAGTTGAAGGCTCCGGCTTCTTATACAGACAAGTCCGGAACATGGTTGCTCTGCTGATTCAAATTGGAAGGGAAGCGCTTCCTCCTGATATTGTTCCCAAGCTATTGGCAACACGAGATCGTAGGGCGCTTGCCAAATATACCATGTTTACTCCACCTCATGGGCTTTGTCTCGTGACGGTCAAGTATAACGAGGAGCATCTACGGCTTCCATCCAGTTGCTCCACAACCAGTTTTGGTAGGCATTATACTATCGGCTCATTCATGGTCTTCATCAATCACTTCAGTGATTTCTCTCCCATGACGCTCGCTACTTTCAAATTTCCAACTGCTCCCAAAAGATATCTCACCATCATAAGTCACAGTGCTTGCAACGATCTTCGGATTTTCTTCCTCTTTGGTGATTTCTGGAATAACGGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PseudoU_synth_1

Protein Analysis

381

Amino Acids

42.97

Weight (kDa)

9.45

Isoelectric Point (pI)

42.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_1	PF01416	58 - 157	1.7e-07	tRNA pseudouridine synthase
PseudoU_synth_1	PF01416	197 - 304	2.2e-25	tRNA pseudouridine synthase

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: OG0006793)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G06950
fragaria_vesca	FvH4_4g21570 FvH4_4g21570 FvH4_4g21570
malus_domestica	MD13G1140300.v1.1 MD16G1135500.v1.1
prunus_persica	Prupe.1G104700_v2.0.a1 Prupe.1G104700_v2.0.a1 Prupe.1G104700_v2.0.a1 Prupe.1G104700_v2.0.a1
pyrus_communis	pycom13g12200 pycom16g11950
rosa_chinensis	RchiOBHm_Chr4g0427681
rosa_laevigata	RLG00000007217
rosa_multiflora	Rmu_sc0003399.1_g000003 Rmu_sc0016038.1_g000001
rosa_roxburghii	Rroxscaffold_5G00369310
rosa_rugosa	Rorug04G0219100 Rorug04G0219200 Rorug04G0219300 Rorug04G0219400
rosa_samantha	Rh4AG275600 Rh4BG281600 Rh4CG297100 Rh4DG279000
rosa_wichuraiana	Rw4G023920

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	185
AccB7I	CCANNNNNTGG	1 cut(s)	881
AccIII	TCCGGA	1 cut(s)	756
AciI	CCGC	2 cut(s)	221, 573
AclWI	GGATC	4 cut(s)	291, 518, 531, 656
AcsI	RAATTY	2 cut(s)	455, 1040
AcuI	CTGAAG	1 cut(s)	988
AfaI	GTAC	2 cut(s)	155, 324
AfeI	AGCGCT	1 cut(s)	798
AfiI	CCNNNNNNNGG	4 cut(s)	430, 688, 763, 881
AgsI	TTSAA	7 cut(s)	364, 380, 594, 698, 728, 782, 1039
AjnI	CCWGG	1 cut(s)	329
AleI	CACNNNNGTG	1 cut(s)	1005
AluBI	AGCT	7 cut(s)	93, 271, 565, 590, 707, 718, 823
AluI	AGCT	7 cut(s)	93, 271, 565, 590, 707, 718, 823
Alw21I	GWGCWC	2 cut(s)	559, 709
Alw26I	GTCTC	1 cut(s)	896
AlwI	GGATC	4 cut(s)	291, 518, 531, 656
AlwNI	CAGNNNCTG	1 cut(s)	452
Aor13HI	TCCGGA	1 cut(s)	756
Aor51HI	AGCGCT	1 cut(s)	798
AoxI	GGCC	1 cut(s)	25
ApeKI	GCWGC	2 cut(s)	90, 392
ApoI	RAATTY	2 cut(s)	455, 1040
Asp700I	GAANNNNTTC	2 cut(s)	384, 798
AspLEI	GCGC	3 cut(s)	263, 799, 850
AsuHPI	GGTGA	4 cut(s)	181, 210, 1060, 1133
BamHI	GGATCC	1 cut(s)	523
BanI	GGYRCC	1 cut(s)	185
BanII	GRGCYC	1 cut(s)	709
BarI	GAAGNNNNNNTAC	2 cut(s)	12, 44
BauI	CACGAG	2 cut(s)	834, 893
BbsI	GAAGAC	2 cut(s)	398, 982
Bbv12I	GWGCWC	2 cut(s)	559, 709
BbvI	GCAGC	2 cut(s)	102, 379
BccI	CCATC	5 cut(s)	101, 140, 195, 940, 1079
BceAI	ACGGC	3 cut(s)	67, 199, 941
BciT130I	CCWGG	1 cut(s)	331
BcoDI	GTCTC	1 cut(s)	896
BfaI	CTAG	1 cut(s)	719
BfmI	CTRYAG	1 cut(s)	444
BfoI	RGCGCY	2 cut(s)	800, 851
BisI	GCNGC	3 cut(s)	91, 393, 573
BlsI	GCNGC	3 cut(s)	92, 394, 574
Bme1390I	CCNGG	1 cut(s)	331
BmiI	GGNNCC	3 cut(s)	187, 525, 733
BmrFI	CCNGG	1 cut(s)	331
BmsI	GCATC	1 cut(s)	928
BpiI	GAAGAC	2 cut(s)	398, 982
BsaJI	CCNNGG	1 cut(s)	330
BsaWI	WCCGGW	1 cut(s)	756
Bsc4I	CCNNNNNNNGG	4 cut(s)	430, 688, 763, 881
Bse1I	ACTGG	3 cut(s)	665, 936, 951
BseAI	TCCGGA	1 cut(s)	756
BseBI	CCWGG	1 cut(s)	331
BseDI	CCNNGG	1 cut(s)	330
BseGI	GGATG	4 cut(s)	112, 151, 206, 932
BseLI	CCNNNNNNNGG	4 cut(s)	430, 688, 763, 881
BseNI	ACTGG	3 cut(s)	665, 936, 951
BseRI	GAGGAG	3 cut(s)	27, 54, 929
BseXI	GCAGC	2 cut(s)	102, 379
BshFI	GGCC	1 cut(s)	27
BshNI	GGYRCC	1 cut(s)	185
BsiHKAI	GWGCWC	2 cut(s)	559, 709
BsiSI	CCGG	2 cut(s)	735, 757
BslI	CCNNNNNNNGG	4 cut(s)	430, 688, 763, 881
BsmAI	GTCTC	1 cut(s)	896
BsmI	GAATGC	2 cut(s)	253, 384
BsnI	GGCC	1 cut(s)	27
Bsp1286I	GDGCHC	2 cut(s)	559, 709
Bsp13I	TCCGGA	1 cut(s)	756
Bsp143I	GATC	6 cut(s)	283, 435, 523, 661, 838, 1096
BspACI	CCGC	2 cut(s)	221, 573
BspANI	GGCC	1 cut(s)	27
BspEI	TCCGGA	1 cut(s)	756
BspLI	GGNNCC	3 cut(s)	187, 525, 733
BspMAI	CTGCAG	1 cut(s)	448
BspPI	GGATC	4 cut(s)	291, 518, 531, 656
BspT107I	GGYRCC	1 cut(s)	185
BsrI	ACTGG	3 cut(s)	665, 936, 951
BssECI	CCNNGG	1 cut(s)	330
BssMI	GATC	6 cut(s)	283, 435, 523, 661, 838, 1096
BssSI	CACGAG	2 cut(s)	834, 893
Bst2BI	CACGAG	2 cut(s)	834, 893
Bst2UI	CCWGG	1 cut(s)	331
Bst4CI	ACNGT	4 cut(s)	234, 404, 901, 1085
BstC8I	GCNNGC	3 cut(s)	852, 1029, 1090
BstF5I	GGATG	4 cut(s)	112, 151, 206, 932
BstH2I	RGCGCY	2 cut(s)	800, 851
BstHHI	GCGC	3 cut(s)	263, 799, 850
BstKTI	GATC	6 cut(s)	286, 438, 526, 664, 841, 1099
BstMAI	GTCTC	1 cut(s)	896
BstMBI	GATC	6 cut(s)	283, 435, 523, 661, 838, 1096
BstMWI	GCNNNNNNNGC	2 cut(s)	381, 925
BstNI	CCWGG	1 cut(s)	331
BstNSI	RCATGY	1 cut(s)	329
BstSCI	CCNGG	1 cut(s)	329
BstSFI	CTRYAG	1 cut(s)	444
BstV1I	GCAGC	2 cut(s)	102, 379
BstV2I	GAAGAC	2 cut(s)	398, 982
BstX2I	RGATCY	2 cut(s)	283, 523
BstXI	CCANNNNNNTGG	1 cut(s)	826
BstYI	RGATCY	2 cut(s)	283, 523
BsuRI	GGCC	1 cut(s)	27
BtsCI	GGATG	4 cut(s)	112, 151, 206, 932
BtsI	GCAGTG	1 cut(s)	453
BtsIMutI	CAGTG	5 cut(s)	239, 453, 672, 1012, 1090
Cac8I	GCNNGC	3 cut(s)	852, 1029, 1090
CaiI	CAGNNNCTG	1 cut(s)	452
CfoI	GCGC	3 cut(s)	263, 799, 850
CseI	GACGC	2 cut(s)	524, 1033
Csp6I	GTAC	2 cut(s)	154, 323
CviQI	GTAC	2 cut(s)	154, 323
DpnI	GATC	6 cut(s)	285, 437, 525, 663, 840, 1098
DpnII	GATC	6 cut(s)	283, 435, 523, 661, 838, 1096
Ecl136II	GAGCTC	1 cut(s)	707
Eco147I	AGGCCT	1 cut(s)	27
Eco24I	GRGCYC	1 cut(s)	709
Eco32I	GATATC	2 cut(s)	421, 1064
Eco47III	AGCGCT	1 cut(s)	798
Eco53kI	GAGCTC	1 cut(s)	707
Eco57I	CTGAAG	1 cut(s)	988
EcoICRI	GAGCTC	1 cut(s)	707
EcoRI	GAATTC	1 cut(s)	455
EcoRII	CCWGG	1 cut(s)	329
EcoRV	GATATC	2 cut(s)	421, 1064
EcoT38I	GRGCYC	1 cut(s)	709
Fnu4HI	GCNGC	3 cut(s)	91, 393, 573
FokI	GGATG	4 cut(s)	119, 158, 213, 919
FriOI	GRGCYC	1 cut(s)	709
Fsp4HI	GCNGC	3 cut(s)	91, 393, 573
FspBI	CTAG	1 cut(s)	719
GlaI	GCGC	3 cut(s)	262, 798, 849
GluI	GCNGC	3 cut(s)	91, 393, 573
HaeII	RGCGCY	2 cut(s)	800, 851
HaeIII	GGCC	1 cut(s)	27
HapII	CCGG	2 cut(s)	735, 757
HgaI	GACGC	2 cut(s)	524, 1033
HhaI	GCGC	3 cut(s)	263, 799, 850
Hin6I	GCGC	3 cut(s)	261, 797, 848
HinP1I	GCGC	3 cut(s)	261, 797, 848
HindIII	AAGCTT	1 cut(s)	588
HinfI	GANTC	1 cut(s)	778
HpaII	CCGG	2 cut(s)	735, 757
HphI	GGTGA	4 cut(s)	181, 210, 1060, 1133
Hpy166II	GTNNAC	2 cut(s)	218, 870
Hpy188I	TCNGA	2 cut(s)	425, 1104
Hpy188III	TCNNGA	5 cut(s)	413, 757, 806, 895, 1129
Hpy8I	GTNNAC	2 cut(s)	218, 870
HpyAV	CCTTC	7 cut(s)	38, 42, 274, 640, 664, 722, 783
HpyCH4III	ACNGT	4 cut(s)	234, 404, 901, 1085
HpyCH4V	TGCA	6 cut(s)	14, 197, 302, 344, 446, 1092
HpyF10VI	GCNNNNNNNGC	2 cut(s)	381, 925
HspAI	GCGC	3 cut(s)	261, 797, 848
Kpn2I	TCCGGA	1 cut(s)	756
Kzo9I	GATC	6 cut(s)	283, 435, 523, 661, 838, 1096
LmnI	GCTCC	5 cut(s)	704, 737, 916, 947, 1057
Lsp1109I	GCAGC	2 cut(s)	102, 379
LweI	GCATC	1 cut(s)	928
MaeI	CTAG	1 cut(s)	719
MaeIII	GTNAC	5 cut(s)	47, 352, 536, 895, 1079
MalI	GATC	6 cut(s)	285, 437, 525, 663, 840, 1098
MboI	GATC	6 cut(s)	283, 435, 523, 661, 838, 1096
MboII	GAAGA	7 cut(s)	109, 278, 398, 401, 982, 1091, 1102
MflI	RGATCY	2 cut(s)	283, 523
MhlI	GDGCHC	2 cut(s)	559, 709
MluCI	AATT	5 cut(s)	69, 111, 455, 783, 1040
MmeI	TCCRAC	1 cut(s)	1070
MnlI	CCTC	8 cut(s)	48, 75, 649, 682, 813, 888, 907, 1124
MroI	TCCGGA	1 cut(s)	756
MroXI	GAANNNNTTC	2 cut(s)	384, 798
MseI	TTAA	1 cut(s)	399
MslI	CAYNNNNRTG	3 cut(s)	518, 698, 1005
MspA1I	CMGCKG	1 cut(s)	575
MspI	CCGG	2 cut(s)	735, 757
MspR9I	CCNGG	1 cut(s)	331
Mva1269I	GAATGC	2 cut(s)	253, 384
MvaI	CCWGG	1 cut(s)	331
MwoI	GCNNNNNNNGC	2 cut(s)	381, 925
NdeII	GATC	6 cut(s)	283, 435, 523, 661, 838, 1096
NlaIV	GGNNCC	3 cut(s)	187, 525, 733
NmuCI	GTSAC	4 cut(s)	352, 536, 895, 1079
NspI	RCATGY	1 cut(s)	329
OliI	CACNNNNGTG	1 cut(s)	1005
PceI	AGGCCT	1 cut(s)	27
PctI	GAATGC	2 cut(s)	253, 384
PdmI	GAANNNNTTC	2 cut(s)	384, 798
PfeI	GAWTC	1 cut(s)	778
PflMI	CCANNNNNTGG	1 cut(s)	881
PkrI	GCNGC	3 cut(s)	92, 394, 574
Psp124BI	GAGCTC	1 cut(s)	709
Psp6I	CCWGG	1 cut(s)	329
PspGI	CCWGG	1 cut(s)	329
PspN4I	GGNNCC	3 cut(s)	187, 525, 733
PstI	CTGCAG	1 cut(s)	448
PstNI	CAGNNNCTG	1 cut(s)	452
PsuI	RGATCY	2 cut(s)	283, 523
RsaI	GTAC	2 cut(s)	155, 324
RsaNI	GTAC	2 cut(s)	154, 323
RseI	CAYNNNNRTG	3 cut(s)	518, 698, 1005
SacI	GAGCTC	1 cut(s)	709
SaqAI	TTAA	1 cut(s)	399
SatI	GCNGC	3 cut(s)	91, 393, 573
Sau3AI	GATC	6 cut(s)	283, 435, 523, 661, 838, 1096
ScrFI	CCNGG	1 cut(s)	331
SduI	GDGCHC	2 cut(s)	559, 709
SfaNI	GCATC	1 cut(s)	928
SfcI	CTRYAG	1 cut(s)	444
SmiMI	CAYNNNNRTG	3 cut(s)	518, 698, 1005
Sse9I	AATT	5 cut(s)	69, 111, 455, 783, 1040
SseBI	AGGCCT	1 cut(s)	27
SsiI	CCGC	2 cut(s)	221, 573
SspMI	CTAG	1 cut(s)	719
SstI	GAGCTC	1 cut(s)	709
StuI	AGGCCT	1 cut(s)	27
StyD4I	CCNGG	1 cut(s)	329
TaaI	ACNGT	4 cut(s)	234, 404, 901, 1085
TaqI	TCGA	1 cut(s)	95
TasI	AATT	5 cut(s)	69, 111, 455, 783, 1040
TatI	WGTACW	1 cut(s)	322
TauI	GCSGC	1 cut(s)	575
TfiI	GAWTC	1 cut(s)	778
Tru1I	TTAA	1 cut(s)	399
Tru9I	TTAA	1 cut(s)	399
TscAI	CASTG	5 cut(s)	239, 453, 672, 1012, 1090
TseFI	GTSAC	4 cut(s)	352, 536, 895, 1079
TseI	GCWGC	2 cut(s)	90, 392
Tsp45I	GTSAC	4 cut(s)	352, 536, 895, 1079
TspDTI	ATGAA	5 cut(s)	278, 377, 508, 973, 982
TspGWI	ACGGA	1 cut(s)	671
TspRI	CASTG	5 cut(s)	239, 453, 672, 1012, 1090
Van91I	CCANNNNNTGG	1 cut(s)	881
XapI	RAATTY	2 cut(s)	455, 1040
XceI	RCATGY	1 cut(s)	329
XmnI	GAANNNNTTC	2 cut(s)	384, 798
XspI	CTAG	1 cut(s)	719

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