Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr04

Orthogroup ID

OG0015288

Physical Location & Seq

Genomic Coordinates Reverse (-)

25965315 .. 25966883

Gene Structure 1569 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD04G1169100.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1569 bp

ATGGTGAGAGCATCTGCACTAAAACCCAGTAGCAAATTCTTCCTGAGAAAGCACAGGAAATGGCCGGTCTCGCCGTACAACACCAGATGGCAACAAATCTTCAACCAAAACCAAGCCTTCCAAAGCCTCAAAAAATCATTGCCGCCACCCTGCCACCTTCTTCCGACGCTCATTTACTCCTTTAAAACCTACAACGTCGACCCAACCCCGGAAGCCTACCACTTTGTCCTCAAAACCCTCACCAAAACCTCCCAGTTCGACCACATCGTTCCGGTTCTCTGCCAGCTCGAAAAAGTCGAAAAGTTCGACACGCCGGAGCACATTTTTTCCCATCTAATCTGTTTTTATGGCCGTTGGAGCAGAACCCAGGACGCAATTGATCTGTTTTACAGAATTCCCAAGTTCAGGTGTGTCCCTTCTGCTCACTCTCTCAATGCATTGTTGTATGTGCTTTGTGGGTCCTGTGAAGGTCTTAAATTGGTTCCCGAGATTTTGCTCAGGAGCCACGTAATGGGCATCCGGCTCGAAGAATCGAGTTTTTGGATTTTGGTCAGTGCTTTGTGTGGAATTGGGAAGGTTGGATATGCTATTGAGATTATGAATTGTATGATGAATAATGGTTATGGTTTGAATGTGAAGATTTGCGGTTTGATATTGTTATCATTGTGTGAACAAAAGGATTCAGAGTGTGTTGATGTTATGGGGTTTATGGGAGAAATGCAGATACTTGGGTTTTGTCCTGGGATGATGGACTATTCCAATGTGATTAGGGTTATGGTGAAACAGGGGAGGGGTTTGGATGCCTTGAATGTGTTGGTTAAGATGAAGGAGGAAGGAATTAAGCCTGACATTGTTTGTTATACCATGGTCTTACATGGCTTTATCGCGGAAGGGGATTTCAAGAAGGCGGATCAGGTTTTTGATGAGCTGCTTGTGTTGGGTTTGGTTCCGGATGTTTATACCTACAATGTGTATATAAGTGGTTTGTGTAAGCAGAATAAAGTTCAATCGGGATTGATGATGATTACTTCTATGGAAGAGTTGGGGTGCAAGCCTAATTTGATTACTTATAACATCTTGCTGAAGGCAATTTGTAACAGTGGGGAGCTTAGGAGGGCTAGAAATCTTATGCGTGAGATGACGTTAAACGGTGTTGGGGTAAACTTGCAGACTTATAGGATTATGCTGGATGGTCTGTTTGGCAAAGGAGACATTGAGGAAGCTTGTGTCTTTATGGAAGAAATGTTAGATAAGGTTATTGTTCATTTTTGTTCCTCATTCGATAAGGTGATTTATGGGTTGTGCCAAAGGGGTTTGGTTTGTAAAGCAATGGAATTGCTGAAGAAAATGGTTGACAAGAACGTTGCTCCCAGAGAAAAGGCTCGGGAAGCACTGCTTCTTAGCTCAGGATCCAAACCCGATTTGAAAGAGACTATTTGGACTGGTTTGGTGGGGCCAATTATAGCACTTTATAGCACTAACAGAGGACCAGTAAGTTGTGCATCTCTTTGTTATACATTTACCATTAGTTGTTTGTACCATATAGAATCCACAGCGACAGTTGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003725 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004525 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016246 GO:0016441 GO:0016458 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019222 GO:0030422 GO:0031047 GO:0031050 GO:0031053 GO:0031054 GO:0032296 GO:0034470 GO:0034641 GO:0034660 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043331 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1901698 GO:1901699

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3 dsrm

Protein Analysis

523

Amino Acids

58.92

Weight (kDa)

8.41

Isoelectric Point (pI)

36.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	239 - 291	1.3e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	252 - 294	1.9e-08	PPR repeat family
PPR_3	PF13812	271 - 327	4.5e-09	Pentatricopeptide repeat domain
PPR_2	PF13041	282 - 331	3e-14	PPR repeat family
PPR_3	PF13812	306 - 366	1.1e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	314 - 344	4.2e-06	PPR repeat
PPR_2	PF13041	317 - 366	1.8e-15	PPR repeat family
PPR_1	PF12854	349 - 381	1.6e-09	PPR repeat
PPR_2	PF13041	355 - 399	3.6e-11	PPR repeat family

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: OG0015288)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G38420
fragaria_vesca	FvH4_6g10340
malus_domestica	MD04G1169100.v1.1 MD12G1182800.v1.1
prunus_persica	Prupe.6G287300_v2.0.a1
pyrus_communis	pycom04g14980 pycom12g17160
rosa_laevigata	RLG00000024949
rosa_multiflora	Rmu_sc0001521.1_g000049
rosa_roxburghii	Rroxscaffold_6G00418830
rosa_rugosa	Rorug03G0048500 Rorug03G0048700
rosa_samantha	Rh3BG110100 Rh3CG111600 Rh3DG111700
rosa_wichuraiana	Rw3G009060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1071
AccB7I	CCANNNNNTGG	1 cut(s)	511
AccI	GTMKAC	1 cut(s)	198
AccII	CGCG	1 cut(s)	887
AccIII	TCCGGA	1 cut(s)	949
AciI	CCGC	4 cut(s)	143, 645, 887, 908
AclI	AACGTT	1 cut(s)	1362
AclWI	GGATC	3 cut(s)	918, 1404, 1417
AcoI	YGGCCR	2 cut(s)	62, 349
AcsI	RAATTY	2 cut(s)	35, 393
AcuI	CTGAAG	2 cut(s)	1103, 1361
AfaI	GTAC	2 cut(s)	77, 1538
AfiI	CCNNNNNNNGG	3 cut(s)	208, 405, 511
AgsI	TTSAA	6 cut(s)	103, 631, 808, 901, 1007, 1426
AjnI	CCWGG	2 cut(s)	366, 739
AluBI	AGCT	5 cut(s)	286, 928, 1108, 1223, 1404
AluI	AGCT	5 cut(s)	286, 928, 1108, 1223, 1404
Alw21I	GWGCWC	1 cut(s)	321
Alw26I	GTCTC	3 cut(s)	73, 1203, 1424
AlwI	GGATC	3 cut(s)	918, 1404, 1417
Ama87I	CYCGRG	2 cut(s)	485, 1383
Aor13HI	TCCGGA	1 cut(s)	949
AoxI	GGCC	3 cut(s)	62, 349, 1454
ApeKI	GCWGC	1 cut(s)	928
ApoI	RAATTY	2 cut(s)	35, 393
AspS9I	GGNCC	3 cut(s)	459, 1454, 1487
AsuC2I	CCSGG	1 cut(s)	209
AsuHPI	GGTGA	4 cut(s)	16, 232, 790, 1300
AvaI	CYCGRG	2 cut(s)	485, 1383
AvaII	GGWCC	2 cut(s)	459, 1487
BaeI	ACNNNNGTAYC	2 cut(s)	716, 749
BamHI	GGATCC	1 cut(s)	1409
Bbv12I	GWGCWC	1 cut(s)	321
BbvI	GCAGC	1 cut(s)	915
BccI	CCATC	4 cut(s)	81, 339, 742, 1184
BceAI	ACGGC	2 cut(s)	58, 336
BcgI	CGANNNNNNTGC	2 cut(s)	505, 539
BciT130I	CCWGG	2 cut(s)	368, 741
BcnI	CCSGG	1 cut(s)	209
BcoDI	GTCTC	3 cut(s)	73, 1203, 1424
BfaI	CTAG	1 cut(s)	1119
BisI	GCNGC	2 cut(s)	143, 929
BlsI	GCNGC	2 cut(s)	144, 930
Bme1390I	CCNGG	3 cut(s)	209, 368, 741
Bme18I	GGWCC	2 cut(s)	459, 1487
BmeT110I	CYCGRG	2 cut(s)	485, 1383
BmgT120I	GGNCC	3 cut(s)	459, 1454, 1487
BmiI	GGNNCC	6 cut(s)	460, 483, 503, 948, 1411, 1455
BmrFI	CCNGG	3 cut(s)	209, 368, 741
BmrI	ACTGGG	2 cut(s)	21, 247
BmsI	GCATC	4 cut(s)	20, 525, 790, 1511
BmuI	ACTGGG	2 cut(s)	21, 247
Bpu10I	CCTNAGC	3 cut(s)	497, 1109, 1405
BpuMI	CCSGG	1 cut(s)	209
BsaAI	YACGTR	1 cut(s)	508
BsaI	GGTCTC	1 cut(s)	73
BsaJI	CCNNGG	4 cut(s)	207, 366, 740, 864
BsaWI	WCCGGW	2 cut(s)	271, 949
Bsc4I	CCNNNNNNNGG	3 cut(s)	208, 405, 511
Bse118I	RCCGGY	1 cut(s)	64
Bse1I	ACTGG	4 cut(s)	27, 253, 1447, 1490
Bse3DI	GCAATG	2 cut(s)	137, 1335
BseAI	TCCGGA	1 cut(s)	949
BseBI	CCWGG	2 cut(s)	368, 741
BseDI	CCNNGG	4 cut(s)	207, 366, 740, 864
BseGI	GGATG	5 cut(s)	516, 750, 805, 958, 1195
BseLI	CCNNNNNNNGG	3 cut(s)	208, 405, 511
BseMI	GCAATG	2 cut(s)	137, 1335
BseMII	CTCAG	3 cut(s)	35, 511, 1419
BseNI	ACTGG	4 cut(s)	27, 253, 1447, 1490
BseXI	GCAGC	1 cut(s)	915
Bsh1236I	CGCG	1 cut(s)	887
BshFI	GGCC	3 cut(s)	64, 351, 1456
BsiHKAI	GWGCWC	1 cut(s)	321
BsiHKCI	CYCGRG	2 cut(s)	485, 1383
BsiSI	CCGG	6 cut(s)	65, 209, 272, 314, 520, 950
BslFI	GGGAC	1 cut(s)	398
BslI	CCNNNNNNNGG	3 cut(s)	208, 405, 511
BsmAI	GTCTC	3 cut(s)	73, 1203, 1424
BsmFI	GGGAC	1 cut(s)	398
BsnI	GGCC	3 cut(s)	64, 351, 1456
Bso31I	GGTCTC	1 cut(s)	73
BsoBI	CYCGRG	2 cut(s)	485, 1383
Bsp1286I	GDGCHC	1 cut(s)	321
Bsp13I	TCCGGA	1 cut(s)	949
Bsp143I	GATC	3 cut(s)	379, 910, 1409
Bsp19I	CCATGG	1 cut(s)	864
BspACI	CCGC	4 cut(s)	143, 645, 887, 908
BspANI	GGCC	3 cut(s)	64, 351, 1456
BspCNI	CTCAG	3 cut(s)	36, 510, 1418
BspEI	TCCGGA	1 cut(s)	949
BspFNI	CGCG	1 cut(s)	887
BspLI	GGNNCC	6 cut(s)	460, 483, 503, 948, 1411, 1455
BspPI	GGATC	3 cut(s)	918, 1404, 1417
BspTNI	GGTCTC	1 cut(s)	73
BsrDI	GCAATG	2 cut(s)	137, 1335
BsrFI	RCCGGY	1 cut(s)	64
BsrI	ACTGG	4 cut(s)	27, 253, 1447, 1490
BssAI	RCCGGY	1 cut(s)	64
BssECI	CCNNGG	4 cut(s)	207, 366, 740, 864
BssMI	GATC	3 cut(s)	379, 910, 1409
BssT1I	CCWWGG	1 cut(s)	864
Bst2UI	CCWGG	2 cut(s)	368, 741
Bst4CI	ACNGT	3 cut(s)	1100, 1151, 1561
Bst6I	CTCTTC	1 cut(s)	1032
BstBAI	YACGTR	1 cut(s)	508
BstC8I	GCNNGC	2 cut(s)	284, 1052
BstDEI	CTNAG	5 cut(s)	44, 497, 1109, 1400, 1405
BstDSI	CCRYGG	1 cut(s)	864
BstF5I	GGATG	5 cut(s)	516, 750, 805, 958, 1195
BstFNI	CGCG	1 cut(s)	887
BstKTI	GATC	3 cut(s)	382, 913, 1412
BstMAI	GTCTC	3 cut(s)	73, 1203, 1424
BstMBI	GATC	3 cut(s)	379, 910, 1409
BstMWI	GCNNNNNNNGC	3 cut(s)	70, 357, 1388
BstNI	CCWGG	2 cut(s)	368, 741
BstSCI	CCNGG	3 cut(s)	207, 366, 739
BstUI	CGCG	1 cut(s)	887
BstV1I	GCAGC	1 cut(s)	915
BstX2I	RGATCY	1 cut(s)	1409
BstYI	RGATCY	1 cut(s)	1409
BsuRI	GGCC	3 cut(s)	64, 351, 1456
BtgI	CCRYGG	1 cut(s)	864
BtsCI	GGATG	5 cut(s)	516, 750, 805, 958, 1195
BtsI	GCAGTG	1 cut(s)	1391
BtsIMutI	CAGTG	3 cut(s)	559, 1105, 1391
Cac8I	GCNNGC	2 cut(s)	284, 1052
Cfr10I	RCCGGY	1 cut(s)	64
Cfr13I	GGNCC	3 cut(s)	459, 1454, 1487
CseI	GACGC	2 cut(s)	175, 380
Csp6I	GTAC	2 cut(s)	76, 1537
CviAII	CATG	2 cut(s)	865, 875
CviQI	GTAC	2 cut(s)	76, 1537
DdeI	CTNAG	5 cut(s)	44, 497, 1109, 1400, 1405
DpnI	GATC	3 cut(s)	381, 912, 1411
DpnII	GATC	3 cut(s)	379, 910, 1409
DraI	TTTAAA	1 cut(s)	184
EaeI	YGGCCR	2 cut(s)	62, 349
Eam1104I	CTCTTC	1 cut(s)	1032
EarI	CTCTTC	1 cut(s)	1032
EciI	GGCGGA	1 cut(s)	923
Eco130I	CCWWGG	1 cut(s)	864
Eco31I	GGTCTC	1 cut(s)	73
Eco47I	GGWCC	2 cut(s)	459, 1487
Eco57I	CTGAAG	2 cut(s)	1103, 1361
Eco88I	CYCGRG	2 cut(s)	485, 1383
EcoO109I	RGGNCCY	1 cut(s)	459
EcoRI	GAATTC	1 cut(s)	393
EcoRII	CCWGG	2 cut(s)	366, 739
EcoT14I	CCWWGG	1 cut(s)	864
EcoT22I	ATGCAT	1 cut(s)	439
ErhI	CCWWGG	1 cut(s)	864
FaeI	CATG	2 cut(s)	868, 878
FalI	AAGNNNNNCTT	2 cut(s)	1380, 1412
FaqI	GGGAC	1 cut(s)	398
FatI	CATG	2 cut(s)	864, 874
FblI	GTMKAC	1 cut(s)	198
Fnu4HI	GCNGC	2 cut(s)	143, 929
FokI	GGATG	5 cut(s)	503, 757, 812, 965, 1202
Fsp4HI	GCNGC	2 cut(s)	143, 929
FspBI	CTAG	1 cut(s)	1119
GluI	GCNGC	2 cut(s)	143, 929
HaeIII	GGCC	3 cut(s)	64, 351, 1456
HapII	CCGG	6 cut(s)	65, 209, 272, 314, 520, 950
HgaI	GACGC	2 cut(s)	175, 380
Hin1II	CATG	2 cut(s)	868, 878
HincII	GTYRAC	2 cut(s)	199, 1354
HindII	GTYRAC	2 cut(s)	199, 1354
HindIII	AAGCTT	1 cut(s)	1221
HinfI	GANTC	3 cut(s)	530, 680, 1547
HpaII	CCGG	6 cut(s)	65, 209, 272, 314, 520, 950
HphI	GGTGA	4 cut(s)	16, 232, 790, 1300
Hpy166II	GTNNAC	4 cut(s)	199, 671, 1162, 1354
Hpy188I	TCNGA	2 cut(s)	165, 685
Hpy188III	TCNNGA	8 cut(s)	43, 485, 499, 901, 950, 1011, 1385, 1407
Hpy8I	GTNNAC	4 cut(s)	199, 671, 1162, 1354
Hpy99I	CGWCG	2 cut(s)	169, 200
HpyCH4III	ACNGT	3 cut(s)	1100, 1151, 1561
HpyCH4IV	ACGT	4 cut(s)	195, 507, 1142, 1362
HpyCH4V	TGCA	6 cut(s)	17, 437, 721, 1050, 1168, 1502
HpyF10VI	GCNNNNNNNGC	3 cut(s)	70, 357, 1388
HpyF3I	CTNAG	5 cut(s)	44, 497, 1109, 1400, 1405
HpySE526I	ACGT	4 cut(s)	195, 507, 1142, 1362
Hsp92II	CATG	2 cut(s)	868, 878
Kpn2I	TCCGGA	1 cut(s)	949
Kzo9I	GATC	3 cut(s)	379, 910, 1409
LmnI	GCTCC	5 cut(s)	316, 357, 501, 1105, 1372
Lsp1109I	GCAGC	1 cut(s)	915
LweI	GCATC	4 cut(s)	20, 525, 790, 1511
MaeI	CTAG	1 cut(s)	1119
MaeII	ACGT	4 cut(s)	195, 507, 1142, 1362
MaeIII	GTNAC	1 cut(s)	1094
MalI	GATC	3 cut(s)	381, 912, 1411
MboI	GATC	3 cut(s)	379, 910, 1409
MboII	GAAGA	8 cut(s)	31, 91, 152, 539, 649, 1049, 1250, 1354
MfeI	CAATTG	1 cut(s)	375
MflI	RGATCY	1 cut(s)	1409
MhlI	GDGCHC	1 cut(s)	321
MmeI	TCCRAC	3 cut(s)	188, 335, 559
Mph1103I	ATGCAT	1 cut(s)	439
MroI	TCCGGA	1 cut(s)	949
MseI	TTAA	5 cut(s)	183, 474, 819, 840, 1145
MspI	CCGG	6 cut(s)	65, 209, 272, 314, 520, 950
MspR9I	CCNGG	3 cut(s)	209, 368, 741
MunI	CAATTG	1 cut(s)	375
MvaI	CCWGG	2 cut(s)	368, 741
MvnI	CGCG	1 cut(s)	887
MwoI	GCNNNNNNNGC	3 cut(s)	70, 357, 1388
NciI	CCSGG	1 cut(s)	209
NcoI	CCATGG	1 cut(s)	864
NdeII	GATC	3 cut(s)	379, 910, 1409
NlaIII	CATG	2 cut(s)	868, 878
NlaIV	GGNNCC	6 cut(s)	460, 483, 503, 948, 1411, 1455
NsiI	ATGCAT	1 cut(s)	439
PcsI	WCGNNNNNNNCGW	3 cut(s)	264, 294, 303
PfeI	GAWTC	3 cut(s)	530, 680, 1547
PflMI	CCANNNNNTGG	1 cut(s)	511
PkrI	GCNGC	2 cut(s)	144, 930
Ppu21I	YACGTR	1 cut(s)	508
PpuMI	RGGWCCY	1 cut(s)	459
PsiI	TTATAA	1 cut(s)	1071
Psp1406I	AACGTT	1 cut(s)	1362
Psp5II	RGGWCCY	1 cut(s)	459
Psp6I	CCWGG	2 cut(s)	366, 739
PspGI	CCWGG	2 cut(s)	366, 739
PspN4I	GGNNCC	6 cut(s)	460, 483, 503, 948, 1411, 1455
PspPI	GGNCC	3 cut(s)	459, 1454, 1487
PspPPI	RGGWCCY	1 cut(s)	459
PsuI	RGATCY	1 cut(s)	1409
RsaI	GTAC	2 cut(s)	77, 1538
RsaNI	GTAC	2 cut(s)	76, 1537
SalI	GTCGAC	1 cut(s)	197
SaqAI	TTAA	5 cut(s)	183, 474, 819, 840, 1145
SatI	GCNGC	2 cut(s)	143, 929
Sau3AI	GATC	3 cut(s)	379, 910, 1409
Sau96I	GGNCC	3 cut(s)	459, 1454, 1487
ScrFI	CCNGG	3 cut(s)	209, 368, 741
SduI	GDGCHC	1 cut(s)	321
SfaNI	GCATC	4 cut(s)	20, 525, 790, 1511
SinI	GGWCC	2 cut(s)	459, 1487
SsiI	CCGC	4 cut(s)	143, 645, 887, 908
SspMI	CTAG	1 cut(s)	1119
StyD4I	CCNGG	3 cut(s)	207, 366, 739
StyI	CCWWGG	1 cut(s)	864
TaaI	ACNGT	3 cut(s)	1100, 1151, 1561
TaiI	ACGT	4 cut(s)	198, 510, 1145, 1365
TaqI	TCGA	8 cut(s)	198, 258, 288, 297, 306, 525, 533, 1281
TauI	GCSGC	1 cut(s)	145
TfiI	GAWTC	3 cut(s)	530, 680, 1547
Tru1I	TTAA	5 cut(s)	183, 474, 819, 840, 1145
Tru9I	TTAA	5 cut(s)	183, 474, 819, 840, 1145
TscAI	CASTG	3 cut(s)	559, 1105, 1398
TseI	GCWGC	1 cut(s)	928
TspDTI	ATGAA	4 cut(s)	614, 626, 839, 1253
TspRI	CASTG	3 cut(s)	559, 1105, 1398
Van91I	CCANNNNNTGG	1 cut(s)	511
VpaK11BI	GGWCC	2 cut(s)	459, 1487
XapI	RAATTY	2 cut(s)	35, 393
XmiI	GTMKAC	1 cut(s)	198
XspI	CTAG	1 cut(s)	1119
Zsp2I	ATGCAT	1 cut(s)	439

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