Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr15

Orthogroup ID

OG0004793

Physical Location & Seq

Genomic Coordinates Reverse (-)

53547985 .. 53552778

Gene Structure 4794 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD15G1435400.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1077 bp

ATGTCAGAAAATCTTAAGCACCCACTCAAACTAGATAGCATCAGCAACTCCCAATCTCCCCAAAGGCCTTCAAAGATTTTCAAAACCGCCGACGATCTCAGCGAGGAGTCTCAGCAACTGCAATCGATGAGCCAACACCCTGGAATCCAGCGATATCTTCTGGCAATCGAGTACATTGGTACTCGCTTTTCGGGCTCGCAGCAGCAGTCCAATTGCCGCACAGTTGTTGGCGTTCTTGAGGAGGCATTTCGTAAATTTATTGGGCAGCCGGTTTCGATATTCTGTTCAAGTCGAACTGATGCTGGAGTCCATGCCTTGTCGAATGTTTGTCATGTAGATGTTGAGCGCATTAGCAAAAGGAAGCCTGGCGAAGTGTTAGAACCCCATGAATCTGCAGTGGTCAAAAAAGCTGTGAATCATTTCTTACAGAAGAATGAAGGTGACGTAATGGTGATAGATGTTCGAAGTGTTCCAGCTAATTTTCATGCTCGATATAAAGCCCAAGAGCGCACGTACTTCTACCGTTTTCTGTCCGGACCAGAGCCTTTGTCAACTTTTGAAAAAGACCGGGCATGGCATGTACCTGAGGAGCTGGATCTTTGCTCTATGCAGGAAGCATGCAAGGTTCTGGTTGGACATCATGATTTTAGTTCCTTTAGGGCAGCAGGTTGTCAGGCAAAGTCGCCGATCAGAACTTTGGATGAACTTAATGTTTCTGAGGTAGTGTCAAGTCCTTGTTTTCCATCAATAATGGAGAGGAAACAAAACAATTTAGTGGAGGAAGATCCTCATGCCCACACTAACAAATTAGAGACTGATACACCCTCTAGTTTCAATGAAGGACAAGGATTTGGTGTGAGAAAAAAGCACCGTTGCTTTGTGGTAACCGCACGAGCACGTTCTTTTCTATACCACCAGGTTAGACTGCTTGTTGGTGTACTCAAATGCGTTGGCACTGGAGATTTAAAAGTACCTGATGTCGAGAGGATCTTGAATGCAAAGACGGTGACTGCCGCTAGTCCCATGGCACCTGCCTGTGGTCTGTACCTTGGACAAGTGAAGTACGATTTGCCATGA

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

359

Amino Acids

40.04

Weight (kDa)

8.27

Isoelectric Point (pI)

49.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PseudoU_synth_1	PF01416	55 - 130	1.2e-07	tRNA pseudouridine synthase
PseudoU_synth_1	PF01416	206 - 356	4.2e-24	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: OG0004793)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G09800 AT1G09800
fragaria_vesca	FvH4_3g33250
malus_domestica	MD08G1241400.v1.1 MD15G1435400.v1.1
prunus_persica	Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1 Prupe.1G579000_v2.0.a1
pyrus_communis	pycom08g20930 pycom15g38410
rosa_chinensis	RchiOBHm_Chr3g0481081 RchiOBHm_Chr5g0060601
rosa_laevigata	RLG00000035374
rosa_multiflora	Rmu_sc0001650.1_g000001 Rmu_sc0020761.1_g000005
rosa_roxburghii	Rroxscaffold_1G00020210 Rroxscaffold_7G00212020
rosa_rugosa	Rorug05G0331000
rosa_samantha	Rh3AG240400 Rh5AG395500 Rh5BG407800 Rh5CG432300 Rh5DG422700
rosa_wichuraiana	Rw5G037210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	1039
Acc36I	ACCTGC	2 cut(s)	656, 1039
AccB1I	GGYRCC	1 cut(s)	1027
AccIII	TCCGGA	1 cut(s)	533
AciI	CCGC	4 cut(s)	87, 217, 888, 1014
AclWI	GGATC	3 cut(s)	603, 779, 995
AcsI	RAATTY	1 cut(s)	254
AfaI	GTAC	8 cut(s)	173, 181, 515, 582, 939, 972, 1046, 1064
AfiI	CCNNNNNNNGG	1 cut(s)	1037
AflII	CTTAAG	1 cut(s)	14
AgsI	TTSAA	6 cut(s)	72, 82, 288, 560, 835, 994
AjnI	CCWGG	3 cut(s)	139, 364, 915
AluBI	AGCT	3 cut(s)	410, 476, 592
AluI	AGCT	3 cut(s)	410, 476, 592
Alw21I	GWGCWC	1 cut(s)	898
Alw26I	GTCTC	2 cut(s)	114, 806
AlwI	GGATC	3 cut(s)	603, 779, 995
AlwNI	CAGNNNCTG	1 cut(s)	118
Aor13HI	TCCGGA	1 cut(s)	533
AoxI	GGCC	1 cut(s)	65
ApeKI	GCWGC	4 cut(s)	199, 202, 265, 662
ApoI	RAATTY	1 cut(s)	254
Asp700I	GAANNNNTTC	1 cut(s)	419
AspLEI	GCGC	2 cut(s)	348, 510
AspS9I	GGNCC	1 cut(s)	536
AsuC2I	CCSGG	1 cut(s)	569
AsuHPI	GGTGA	3 cut(s)	452, 463, 1018
AsuII	TTCGAA	1 cut(s)	463
AvaII	GGWCC	1 cut(s)	536
AxyI	CCTNAGG	1 cut(s)	585
BanI	GGYRCC	1 cut(s)	1027
BanII	GRGCYC	1 cut(s)	197
BauI	CACGAG	1 cut(s)	891
Bbv12I	GWGCWC	1 cut(s)	898
BbvI	GCAGC	4 cut(s)	211, 214, 277, 674
BccI	CCATC	1 cut(s)	751
BciT130I	CCWGG	3 cut(s)	141, 366, 917
BcnI	CCSGG	1 cut(s)	569
BcoDI	GTCTC	2 cut(s)	114, 806
BfaI	CTAG	3 cut(s)	32, 828, 1017
BfmI	CTRYAG	1 cut(s)	393
BfrI	CTTAAG	1 cut(s)	14
BfuAI	ACCTGC	2 cut(s)	656, 1039
BisI	GCNGC	6 cut(s)	200, 203, 217, 266, 663, 1014
BlsI	GCNGC	6 cut(s)	201, 204, 218, 267, 664, 1015
Bme1390I	CCNGG	4 cut(s)	141, 366, 569, 917
Bme18I	GGWCC	1 cut(s)	536
BmgT120I	GGNCC	1 cut(s)	536
BmiI	GGNNCC	1 cut(s)	1029
BmrFI	CCNGG	4 cut(s)	141, 366, 569, 917
BmsI	GCATC	2 cut(s)	48, 289
BpmI	CTGGAG	2 cut(s)	324, 978
Bpu14I	TTCGAA	1 cut(s)	463
BpuEI	CTTGAG	1 cut(s)	257
BpuMI	CCSGG	1 cut(s)	569
Bsa29I	ATCGAT	1 cut(s)	125
BsaAI	YACGTR	1 cut(s)	513
BsaJI	CCNNGG	3 cut(s)	139, 1023, 1048
BsaWI	WCCGGW	1 cut(s)	533
Bsc4I	CCNNNNNNNGG	1 cut(s)	1037
Bse118I	RCCGGY	1 cut(s)	268
Bse1I	ACTGG	1 cut(s)	961
Bse21I	CCTNAGG	1 cut(s)	585
BseAI	TCCGGA	1 cut(s)	533
BseBI	CCWGG	3 cut(s)	141, 366, 917
BseCI	ATCGAT	1 cut(s)	125
BseDI	CCNNGG	3 cut(s)	139, 1023, 1048
BseGI	GGATG	1 cut(s)	706
BseLI	CCNNNNNNNGG	1 cut(s)	1037
BseMII	CTCAG	4 cut(s)	112, 125, 576, 708
BseNI	ACTGG	1 cut(s)	961
BseRI	GAGGAG	3 cut(s)	119, 254, 602
BseXI	GCAGC	4 cut(s)	211, 214, 277, 674
BshFI	GGCC	1 cut(s)	67
BshNI	GGYRCC	1 cut(s)	1027
BshVI	ATCGAT	1 cut(s)	125
BsiHKAI	GWGCWC	1 cut(s)	898
BsiSI	CCGG	3 cut(s)	269, 534, 568
BslFI	GGGAC	1 cut(s)	1005
BslI	CCNNNNNNNGG	1 cut(s)	1037
BsmAI	GTCTC	2 cut(s)	114, 806
BsmFI	GGGAC	1 cut(s)	1005
BsmI	GAATGC	1 cut(s)	1000
BsnI	GGCC	1 cut(s)	67
Bsp119I	TTCGAA	1 cut(s)	463
Bsp1286I	GDGCHC	2 cut(s)	197, 898
Bsp13I	TCCGGA	1 cut(s)	533
Bsp143I	GATC	5 cut(s)	94, 595, 687, 784, 987
Bsp19I	CCATGG	1 cut(s)	1023
BspACI	CCGC	4 cut(s)	87, 217, 888, 1014
BspANI	GGCC	1 cut(s)	67
BspCNI	CTCAG	4 cut(s)	111, 124, 577, 709
BspDI	ATCGAT	1 cut(s)	125
BspEI	TCCGGA	1 cut(s)	533
BspHI	TCATGA	1 cut(s)	640
BspLI	GGNNCC	1 cut(s)	1029
BspMAI	CTGCAG	1 cut(s)	397
BspMI	ACCTGC	2 cut(s)	656, 1039
BspPI	GGATC	3 cut(s)	603, 779, 995
BspT104I	TTCGAA	1 cut(s)	463
BspT107I	GGYRCC	1 cut(s)	1027
BspTI	CTTAAG	1 cut(s)	14
BsrFI	RCCGGY	1 cut(s)	268
BsrI	ACTGG	1 cut(s)	961
BssAI	RCCGGY	1 cut(s)	268
BssECI	CCNNGG	3 cut(s)	139, 1023, 1048
BssMI	GATC	5 cut(s)	94, 595, 687, 784, 987
BssSI	CACGAG	1 cut(s)	891
BssT1I	CCWWGG	2 cut(s)	1023, 1048
Bst2BI	CACGAG	1 cut(s)	891
Bst2UI	CCWGG	3 cut(s)	141, 366, 917
Bst4CI	ACNGT	4 cut(s)	223, 524, 872, 1006
BstAFI	CTTAAG	1 cut(s)	14
BstBAI	YACGTR	1 cut(s)	513
BstBI	TTCGAA	1 cut(s)	463
BstC8I	GCNNGC	2 cut(s)	197, 619
BstDEI	CTNAG	4 cut(s)	98, 111, 585, 717
BstDSI	CCRYGG	1 cut(s)	1023
BstEII	GGTNACC	1 cut(s)	883
BstF5I	GGATG	1 cut(s)	706
BstHHI	GCGC	2 cut(s)	348, 510
BstKTI	GATC	5 cut(s)	97, 598, 690, 787, 990
BstMAI	GTCTC	2 cut(s)	114, 806
BstMBI	GATC	5 cut(s)	94, 595, 687, 784, 987
BstMWI	GCNNNNNNNGC	1 cut(s)	192
BstNI	CCWGG	3 cut(s)	141, 366, 917
BstNSI	RCATGY	2 cut(s)	581, 621
BstPI	GGTNACC	1 cut(s)	883
BstSCI	CCNGG	4 cut(s)	139, 364, 567, 915
BstSFI	CTRYAG	1 cut(s)	393
BstV1I	GCAGC	4 cut(s)	211, 214, 277, 674
BstX2I	RGATCY	3 cut(s)	595, 784, 987
BstXI	CCANNNNNNTGG	1 cut(s)	140
BstYI	RGATCY	3 cut(s)	595, 784, 987
Bsu15I	ATCGAT	1 cut(s)	125
Bsu36I	CCTNAGG	1 cut(s)	585
BsuRI	GGCC	1 cut(s)	67
BsuTUI	ATCGAT	1 cut(s)	125
BtgI	CCRYGG	1 cut(s)	1023
BtsCI	GGATG	1 cut(s)	706
BtsI	GCAGTG	1 cut(s)	402
BtsIMutI	CAGTG	2 cut(s)	402, 954
BveI	ACCTGC	2 cut(s)	656, 1039
Cac8I	GCNNGC	2 cut(s)	197, 619
CaiI	CAGNNNCTG	1 cut(s)	118
CciI	TCATGA	1 cut(s)	640
CfoI	GCGC	2 cut(s)	348, 510
Cfr10I	RCCGGY	1 cut(s)	268
Cfr13I	GGNCC	1 cut(s)	536
ClaI	ATCGAT	1 cut(s)	125
CsiI	ACCWGGT	1 cut(s)	915
Csp6I	GTAC	8 cut(s)	172, 180, 514, 581, 938, 971, 1045, 1063
CviQI	GTAC	8 cut(s)	172, 180, 514, 581, 938, 971, 1045, 1063
DdeI	CTNAG	4 cut(s)	98, 111, 585, 717
DpnI	GATC	5 cut(s)	96, 597, 689, 786, 989
DpnII	GATC	5 cut(s)	94, 595, 687, 784, 987
DraI	TTTAAA	1 cut(s)	966
Eco130I	CCWWGG	2 cut(s)	1023, 1048
Eco147I	AGGCCT	1 cut(s)	67
Eco24I	GRGCYC	1 cut(s)	197
Eco32I	GATATC	1 cut(s)	155
Eco47I	GGWCC	1 cut(s)	536
Eco81I	CCTNAGG	1 cut(s)	585
Eco91I	GGTNACC	1 cut(s)	883
EcoO65I	GGTNACC	1 cut(s)	883
EcoRII	CCWGG	3 cut(s)	139, 364, 915
EcoRV	GATATC	1 cut(s)	155
EcoT14I	CCWWGG	2 cut(s)	1023, 1048
EcoT38I	GRGCYC	1 cut(s)	197
ErhI	CCWWGG	2 cut(s)	1023, 1048
FaqI	GGGAC	1 cut(s)	1005
Fnu4HI	GCNGC	6 cut(s)	200, 203, 217, 266, 663, 1014
FokI	GGATG	1 cut(s)	713
FriOI	GRGCYC	1 cut(s)	197
Fsp4HI	GCNGC	6 cut(s)	200, 203, 217, 266, 663, 1014
FspBI	CTAG	3 cut(s)	32, 828, 1017
GlaI	GCGC	2 cut(s)	347, 509
GluI	GCNGC	6 cut(s)	200, 203, 217, 266, 663, 1014
GsuI	CTGGAG	2 cut(s)	324, 978
HaeIII	GGCC	1 cut(s)	67
HapII	CCGG	3 cut(s)	269, 534, 568
HhaI	GCGC	2 cut(s)	348, 510
Hin6I	GCGC	2 cut(s)	346, 508
HinP1I	GCGC	2 cut(s)	346, 508
HincII	GTYRAC	1 cut(s)	552
HindII	GTYRAC	1 cut(s)	552
HinfI	GANTC	5 cut(s)	107, 144, 306, 389, 415
HpaII	CCGG	3 cut(s)	269, 534, 568
HphI	GGTGA	3 cut(s)	452, 463, 1018
Hpy166II	GTNNAC	2 cut(s)	552, 938
Hpy188I	TCNGA	3 cut(s)	7, 692, 718
Hpy188III	TCNNGA	5 cut(s)	236, 534, 641, 982, 991
Hpy8I	GTNNAC	2 cut(s)	552, 938
Hpy99I	CGWCG	1 cut(s)	95
HpyAV	CCTTC	3 cut(s)	78, 431, 833
HpyCH4III	ACNGT	4 cut(s)	223, 524, 872, 1006
HpyCH4IV	ACGT	3 cut(s)	444, 512, 898
HpyCH4V	TGCA	5 cut(s)	121, 395, 610, 621, 998
HpyF10VI	GCNNNNNNNGC	1 cut(s)	192
HpyF3I	CTNAG	4 cut(s)	98, 111, 585, 717
HpySE526I	ACGT	3 cut(s)	444, 512, 898
HspAI	GCGC	2 cut(s)	346, 508
Kpn2I	TCCGGA	1 cut(s)	533
Kzo9I	GATC	5 cut(s)	94, 595, 687, 784, 987
LmnI	GCTCC	1 cut(s)	589
Lsp1109I	GCAGC	4 cut(s)	211, 214, 277, 674
LweI	GCATC	2 cut(s)	48, 289
MabI	ACCWGGT	1 cut(s)	915
MaeI	CTAG	3 cut(s)	32, 828, 1017
MaeII	ACGT	3 cut(s)	444, 512, 898
MaeIII	GTNAC	3 cut(s)	440, 883, 1006
MalI	GATC	5 cut(s)	96, 597, 689, 786, 989
MboI	GATC	5 cut(s)	94, 595, 687, 784, 987
MboII	GAAGA	3 cut(s)	149, 442, 794
MfeI	CAATTG	1 cut(s)	211
MflI	RGATCY	3 cut(s)	595, 784, 987
MhlI	GDGCHC	2 cut(s)	197, 898
MluCI	AATT	5 cut(s)	211, 254, 478, 769, 806
MlyI	GAGTC	2 cut(s)	116, 315
MmeI	TCCRAC	1 cut(s)	613
MroI	TCCGGA	1 cut(s)	533
MroXI	GAANNNNTTC	1 cut(s)	419
MseI	TTAA	3 cut(s)	15, 708, 965
MslI	CAYNNNNRTG	1 cut(s)	336
MspCI	CTTAAG	1 cut(s)	14
MspI	CCGG	3 cut(s)	269, 534, 568
MspR9I	CCNGG	4 cut(s)	141, 366, 569, 917
MunI	CAATTG	1 cut(s)	211
Mva1269I	GAATGC	1 cut(s)	1000
MvaI	CCWGG	3 cut(s)	141, 366, 917
MwoI	GCNNNNNNNGC	1 cut(s)	192
NciI	CCSGG	1 cut(s)	569
NcoI	CCATGG	1 cut(s)	1023
NdeII	GATC	5 cut(s)	94, 595, 687, 784, 987
NlaIV	GGNNCC	1 cut(s)	1029
NmuCI	GTSAC	2 cut(s)	440, 1006
NspI	RCATGY	2 cut(s)	581, 621
NspV	TTCGAA	1 cut(s)	463
PaeI	GCATGC	1 cut(s)	621
PagI	TCATGA	1 cut(s)	640
PaqCI	CACCTGC	1 cut(s)	1039
PceI	AGGCCT	1 cut(s)	67
PcsI	WCGNNNNNNNCGW	1 cut(s)	99
PctI	GAATGC	1 cut(s)	1000
PdmI	GAANNNNTTC	1 cut(s)	419
PfeI	GAWTC	3 cut(s)	144, 389, 415
PkrI	GCNGC	6 cut(s)	201, 204, 218, 267, 664, 1015
PleI	GAGTC	2 cut(s)	115, 314
PpsI	GAGTC	2 cut(s)	115, 314
Ppu21I	YACGTR	1 cut(s)	513
Psp6I	CCWGG	3 cut(s)	139, 364, 915
PspEI	GGTNACC	1 cut(s)	883
PspGI	CCWGG	3 cut(s)	139, 364, 915
PspN4I	GGNNCC	1 cut(s)	1029
PspPI	GGNCC	1 cut(s)	536
PstI	CTGCAG	1 cut(s)	397
PstNI	CAGNNNCTG	1 cut(s)	118
PsuI	RGATCY	3 cut(s)	595, 784, 987
RsaI	GTAC	8 cut(s)	173, 181, 515, 582, 939, 972, 1046, 1064
RsaNI	GTAC	8 cut(s)	172, 180, 514, 581, 938, 971, 1045, 1063
RseI	CAYNNNNRTG	1 cut(s)	336
SaqAI	TTAA	3 cut(s)	15, 708, 965
SatI	GCNGC	6 cut(s)	200, 203, 217, 266, 663, 1014
Sau3AI	GATC	5 cut(s)	94, 595, 687, 784, 987
Sau96I	GGNCC	1 cut(s)	536
SchI	GAGTC	2 cut(s)	116, 315
ScrFI	CCNGG	4 cut(s)	141, 366, 569, 917
SduI	GDGCHC	2 cut(s)	197, 898
SexAI	ACCWGGT	1 cut(s)	915
SfaNI	GCATC	2 cut(s)	48, 289
SfcI	CTRYAG	1 cut(s)	393
SfuI	TTCGAA	1 cut(s)	463
SinI	GGWCC	1 cut(s)	536
SmiMI	CAYNNNNRTG	1 cut(s)	336
SmlI	CTYRAG	2 cut(s)	14, 236
SmoI	CTYRAG	2 cut(s)	14, 236
SphI	GCATGC	1 cut(s)	621
Sse9I	AATT	5 cut(s)	211, 254, 478, 769, 806
SseBI	AGGCCT	1 cut(s)	67
SsiI	CCGC	4 cut(s)	87, 217, 888, 1014
SspMI	CTAG	3 cut(s)	32, 828, 1017
StuI	AGGCCT	1 cut(s)	67
StyD4I	CCNGG	4 cut(s)	139, 364, 567, 915
StyI	CCWWGG	2 cut(s)	1023, 1048
TaaI	ACNGT	4 cut(s)	223, 524, 872, 1006
TaiI	ACGT	3 cut(s)	447, 515, 901
TaqI	TCGA	8 cut(s)	125, 168, 275, 292, 320, 463, 490, 981
TasI	AATT	5 cut(s)	211, 254, 478, 769, 806
TatI	WGTACW	2 cut(s)	171, 937
TauI	GCSGC	2 cut(s)	219, 1016
TfiI	GAWTC	3 cut(s)	144, 389, 415
Tru1I	TTAA	3 cut(s)	15, 708, 965
Tru9I	TTAA	3 cut(s)	15, 708, 965
TscAI	CASTG	2 cut(s)	402, 961
TseFI	GTSAC	2 cut(s)	440, 1006
TseI	GCWGC	4 cut(s)	199, 202, 265, 662
Tsp45I	GTSAC	2 cut(s)	440, 1006
TspDTI	ATGAA	5 cut(s)	402, 450, 473, 717, 852
TspRI	CASTG	2 cut(s)	402, 961
Vha464I	CTTAAG	1 cut(s)	14
VpaK11BI	GGWCC	1 cut(s)	536
XapI	RAATTY	1 cut(s)	254
XceI	RCATGY	2 cut(s)	581, 621
XmnI	GAANNNNTTC	1 cut(s)	419
XspI	CTAG	3 cut(s)	32, 828, 1017

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