Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr11

Orthogroup ID

OG0008406

Physical Location & Seq

Genomic Coordinates Reverse (-)

29486129 .. 29487282

Gene Structure 1154 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD11G1203200.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1086 bp

ATGGAAGATAGCTTCACGTATATAAGTCACACTCAGGTCTTCAGATGGATGCAAAGACAGCGGTGGTATGTTGCTGATAATGGCGTGTATTCAAAATTGATCTCGGTAATGGGAAAGAAAGGCCAAACTCGGATGGCAATGTGGCTTTTCTCTGAGATGCATAATAGTGGGTGCCGGCCTGATACTTCTGTTTACAATGCACTCATCTCAGCCCACCTTAACTCCAAGGATGAAGCGAAGGCTTTGGACAAAGCTCTCGGATACTTTAACAAAATGAAGGGAATGGAATTGTGCCAACCCAGCATTGTGACATACAACATTCTTTTGAGAGCTTTTGCACAATCTCGAAATGTAGGGAAAGTTAATGCTTTGTTTAAGGATCTTGATGAGAGCGTTGCTTCCCCTGATATCTATACGTATAATGGTGTAATAGATGCATATGGGAAGAATGGAAATATCAGAGAAATGGAATCCGTGCTTTCTCGCATGAAAAGTAATCAGTGTAAGCCTGACATCATCACCCTTAATTTGCTGATTGATTCATATGGGAAGAAGCAAGAATTCGATAAGATGGAACAGGTATTTAAGTGCTTACTTCGTTCCAAGGAGAAACCAACACTCCCTACATTTAATTCAATGATCATAAATTATGGTAAGGCAAGGCTTAAGGAGGAAGCGGAACATGTATTGCAGAAGATGGCTGACATGAAATACACGCCAAGCTTCATAACATATGAGAGTCTTGTCATGATGTATGGGTTCTGTGATTGTGTTTCAAAAGCTAGGGAGGTATTTGACAGGTTGGCTGAATCTGGAAGGGAGTTAAAGTTTTCAACGCTTAATGCAATGCTTGATGTTTACTGCATGAATGGTTTGCCCATGGAAGCTGATAAGCTTTTTGCGAGTGCAAATAGTATTGGGGTACGCCCAAATGTATCAACGTATAAACTTTTATACAAGGCTTACACCAAGGGGCTTCAAGAGAAACTGCTGAAATCCATGGAAAACGATGGTATTGTCCCAAATAAGAGGTTCTTTCTAGAGACCGCAGGATGGGGAAAATGTTGTGCCTTGTCCGTTCATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000373 GO:0000375 GO:0000377 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009451 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0022414 GO:0031425 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0061458 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

362

Amino Acids

41.21

Weight (kDa)

8.99

Isoelectric Point (pI)

32.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	29 - 72	1.2e-08	PPR repeat family
PPR_long	PF17177	37 - 171	3.3e-08	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	49 - 112	1.9e-08	Pentatricopeptide repeat domain
PPR_2	PF13041	60 - 113	1e-08	PPR repeat family
PPR_2	PF13041	100 - 146	3e-09	PPR repeat family
PPR_3	PF13812	124 - 184	2.7e-11	Pentatricopeptide repeat domain
PPR_2	PF13041	135 - 183	3.7e-12	PPR repeat family
PPR	PF01535	138 - 168	2e-07	PPR repeat
PPR_2	PF13041	279 - 322	2.5e-06	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

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Publication-ready

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Orthologous Genes (Group: OG0008406)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G39620 AT4G39620
fragaria_vesca	FvH4_4g12030 FvH4_4g12030
malus_domestica	MD03G1187700.v1.1 MD11G1203200.v1.1
prunus_persica	Prupe.4G236100_v2.0.a1
pyrus_communis	pycom03g14050 pycom11g17630
rosa_chinensis	RchiOBHm_Chr4g0409671
rosa_laevigata	RLG00000008536
rosa_multiflora	Rmu_co8330861.1_g000001 Rmu_sc0008746.1_g000016 Rmu_sc0015305.1_g000009
rosa_roxburghii	Rroxscaffold_5G00354190
rosa_rugosa	Rorug04G0095900 Rorug04G0096000
rosa_samantha	Rh4AG157400 Rh4BG157000 Rh4CG167600 Rh4DG151400
rosa_wichuraiana	Rw4G012880 Rw4G012990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	171
AciI	CCGC	3 cut(s)	61, 677, 1047
AclWI	GGATC	1 cut(s)	387
AcsI	RAATTY	1 cut(s)	560
AcuI	CTGAAG	1 cut(s)	25
AfaI	GTAC	1 cut(s)	924
AfiI	CCNNNNNNNGG	1 cut(s)	1053
AflII	CTTAAG	1 cut(s)	665
AflIII	ACRYGT	1 cut(s)	682
AgsI	TTSAA	5 cut(s)	93, 636, 777, 834, 980
AluBI	AGCT	7 cut(s)	12, 254, 332, 723, 782, 887, 895
AluI	AGCT	7 cut(s)	12, 254, 332, 723, 782, 887, 895
Alw26I	GTCTC	1 cut(s)	1037
AlwI	GGATC	1 cut(s)	387
AoxI	GGCC	2 cut(s)	121, 176
ApoI	RAATTY	1 cut(s)	560
AsuHPI	GGTGA	1 cut(s)	511
BaeI	ACNNNNGTAYC	2 cut(s)	174, 207
BanI	GGYRCC	1 cut(s)	171
BbsI	GAAGAC	1 cut(s)	31
BccI	CCATC	6 cut(s)	39, 127, 565, 691, 1004, 1047
BciVI	GTATCC	1 cut(s)	254
BclI	TGATCA	1 cut(s)	639
BcoDI	GTCTC	1 cut(s)	1037
BfaI	CTAG	2 cut(s)	783, 1040
BfrI	CTTAAG	1 cut(s)	665
BfuI	GTATCC	1 cut(s)	254
BmiI	GGNNCC	1 cut(s)	173
BmsI	GCATC	3 cut(s)	39, 147, 424
BpiI	GAAGAC	1 cut(s)	31
BsaAI	YACGTR	2 cut(s)	18, 417
BsaI	GGTCTC	1 cut(s)	1037
BsaJI	CCNNGG	5 cut(s)	225, 603, 879, 969, 999
BsaXI	ACNNNNNCTCC	6 cut(s)	206, 236, 603, 633, 812, 842
Bsc4I	CCNNNNNNNGG	1 cut(s)	1053
Bse118I	RCCGGY	1 cut(s)	174
Bse3DI	GCAATG	2 cut(s)	144, 852
BseDI	CCNNGG	5 cut(s)	225, 603, 879, 969, 999
BseGI	GGATG	4 cut(s)	54, 138, 235, 1058
BseLI	CCNNNNNNNGG	1 cut(s)	1053
BseMI	GCAATG	2 cut(s)	144, 852
BseMII	CTCAG	3 cut(s)	47, 144, 222
BseYI	CCCAGC	1 cut(s)	299
BshFI	GGCC	2 cut(s)	123, 178
BshNI	GGYRCC	1 cut(s)	171
BsiSI	CCGG	1 cut(s)	175
BslFI	GGGAC	1 cut(s)	1004
BslI	CCNNNNNNNGG	1 cut(s)	1053
BsmAI	GTCTC	1 cut(s)	1037
BsmFI	GGGAC	1 cut(s)	1004
BsnI	GGCC	2 cut(s)	123, 178
Bso31I	GGTCTC	1 cut(s)	1037
Bsp143I	GATC	3 cut(s)	99, 379, 639
Bsp19I	CCATGG	2 cut(s)	879, 999
BspACI	CCGC	3 cut(s)	61, 677, 1047
BspANI	GGCC	2 cut(s)	123, 178
BspCNI	CTCAG	3 cut(s)	46, 145, 221
BspHI	TCATGA	1 cut(s)	747
BspLI	GGNNCC	1 cut(s)	173
BspPI	GGATC	1 cut(s)	387
BspT107I	GGYRCC	1 cut(s)	171
BspTI	CTTAAG	1 cut(s)	665
BspTNI	GGTCTC	1 cut(s)	1037
BsrDI	GCAATG	2 cut(s)	144, 852
BsrFI	RCCGGY	1 cut(s)	174
BssAI	RCCGGY	1 cut(s)	174
BssECI	CCNNGG	5 cut(s)	225, 603, 879, 969, 999
BssMI	GATC	3 cut(s)	99, 379, 639
BssT1I	CCWWGG	5 cut(s)	225, 603, 879, 969, 999
BstAFI	CTTAAG	1 cut(s)	665
BstBAI	YACGTR	2 cut(s)	18, 417
BstC8I	GCNNGC	1 cut(s)	176
BstDEI	CTNAG	3 cut(s)	33, 153, 208
BstDSI	CCRYGG	2 cut(s)	879, 999
BstF5I	GGATG	4 cut(s)	54, 138, 235, 1058
BstKTI	GATC	3 cut(s)	102, 382, 642
BstMAI	GTCTC	1 cut(s)	1037
BstMBI	GATC	3 cut(s)	99, 379, 639
BstMWI	GCNNNNNNNGC	2 cut(s)	58, 300
BstNSI	RCATGY	1 cut(s)	686
BstSNI	TACGTA	1 cut(s)	417
BstV2I	GAAGAC	1 cut(s)	31
BstX2I	RGATCY	1 cut(s)	379
BstYI	RGATCY	1 cut(s)	379
BsuI	GTATCC	1 cut(s)	254
BsuRI	GGCC	2 cut(s)	123, 178
BtgI	CCRYGG	2 cut(s)	879, 999
BtsCI	GGATG	4 cut(s)	54, 138, 235, 1058
BtsIMutI	CAGTG	1 cut(s)	506
Cac8I	GCNNGC	1 cut(s)	176
CciI	TCATGA	1 cut(s)	747
Cfr10I	RCCGGY	1 cut(s)	174
Csp6I	GTAC	1 cut(s)	923
CviAII	CATG	7 cut(s)	487, 683, 706, 748, 865, 880, 1000
CviQI	GTAC	1 cut(s)	923
DdeI	CTNAG	3 cut(s)	33, 153, 208
DpnI	GATC	3 cut(s)	101, 381, 641
DpnII	GATC	3 cut(s)	99, 379, 639
Eco105I	TACGTA	1 cut(s)	417
Eco130I	CCWWGG	5 cut(s)	225, 603, 879, 969, 999
Eco31I	GGTCTC	1 cut(s)	1037
Eco32I	GATATC	1 cut(s)	409
Eco57I	CTGAAG	1 cut(s)	25
EcoRI	GAATTC	1 cut(s)	560
EcoRV	GATATC	1 cut(s)	409
EcoT14I	CCWWGG	5 cut(s)	225, 603, 879, 969, 999
EcoT22I	ATGCAT	2 cut(s)	162, 439
ErhI	CCWWGG	5 cut(s)	225, 603, 879, 969, 999
FaeI	CATG	7 cut(s)	490, 686, 709, 751, 868, 883, 1003
FalI	AAGNNNNNCTT	2 cut(s)	1019, 1051
FaqI	GGGAC	1 cut(s)	1004
FatI	CATG	7 cut(s)	486, 682, 705, 747, 864, 879, 999
FauNDI	CATATG	3 cut(s)	439, 544, 733
FbaI	TGATCA	1 cut(s)	639
FokI	GGATG	4 cut(s)	61, 145, 242, 1065
FspBI	CTAG	2 cut(s)	783, 1040
GsaI	CCCAGC	1 cut(s)	303
HaeIII	GGCC	2 cut(s)	123, 178
HapII	CCGG	1 cut(s)	175
Hin1II	CATG	7 cut(s)	490, 686, 709, 751, 868, 883, 1003
HindIII	AAGCTT	2 cut(s)	721, 893
HinfI	GANTC	4 cut(s)	470, 539, 739, 809
HpaII	CCGG	1 cut(s)	175
HphI	GGTGA	1 cut(s)	511
Hpy166II	GTNNAC	2 cut(s)	193, 859
Hpy188I	TCNGA	5 cut(s)	44, 132, 154, 260, 461
Hpy188III	TCNNGA	6 cut(s)	345, 383, 748, 813, 980, 1040
Hpy8I	GTNNAC	2 cut(s)	193, 859
HpyAV	CCTTC	3 cut(s)	232, 271, 810
HpyCH4IV	ACGT	3 cut(s)	17, 416, 941
HpyCH4V	TGCA	9 cut(s)	52, 160, 200, 338, 437, 691, 845, 864, 908
HpyF10VI	GCNNNNNNNGC	2 cut(s)	58, 300
HpyF3I	CTNAG	3 cut(s)	33, 153, 208
HpySE526I	ACGT	3 cut(s)	17, 416, 941
Hsp92II	CATG	7 cut(s)	490, 686, 709, 751, 868, 883, 1003
KroI	GCCGGC	1 cut(s)	174
KroNI	GCCGGC	1 cut(s)	176
Ksp22I	TGATCA	1 cut(s)	639
Kzo9I	GATC	3 cut(s)	99, 379, 639
LweI	GCATC	3 cut(s)	39, 147, 424
MaeI	CTAG	2 cut(s)	783, 1040
MaeII	ACGT	3 cut(s)	17, 416, 941
MaeIII	GTNAC	2 cut(s)	26, 307
MalI	GATC	3 cut(s)	101, 381, 641
MboI	GATC	3 cut(s)	99, 379, 639
MboII	GAAGA	5 cut(s)	17, 31, 457, 562, 706
MflI	RGATCY	1 cut(s)	379
MluCI	AATT	6 cut(s)	95, 287, 526, 560, 631, 646
MlyI	GAGTC	1 cut(s)	748
MnlI	CCTC	3 cut(s)	664, 781, 1023
Mph1103I	ATGCAT	2 cut(s)	162, 439
MroNI	GCCGGC	1 cut(s)	174
MslI	CAYNNNNRTG	1 cut(s)	165
MspA1I	CMGCKG	1 cut(s)	61
MspCI	CTTAAG	1 cut(s)	665
MspI	CCGG	1 cut(s)	175
MwoI	GCNNNNNNNGC	2 cut(s)	58, 300
NaeI	GCCGGC	1 cut(s)	176
NcoI	CCATGG	2 cut(s)	879, 999
NdeI	CATATG	3 cut(s)	439, 544, 733
NdeII	GATC	3 cut(s)	99, 379, 639
NgoMIV	GCCGGC	1 cut(s)	174
NlaIII	CATG	7 cut(s)	490, 686, 709, 751, 868, 883, 1003
NlaIV	GGNNCC	1 cut(s)	173
NmuCI	GTSAC	2 cut(s)	26, 307
NsiI	ATGCAT	2 cut(s)	162, 439
NspI	RCATGY	1 cut(s)	686
PagI	TCATGA	1 cut(s)	747
PciI	ACATGT	1 cut(s)	682
PdiI	GCCGGC	1 cut(s)	176
PfeI	GAWTC	3 cut(s)	470, 539, 809
PleI	GAGTC	1 cut(s)	747
PpsI	GAGTC	1 cut(s)	747
Ppu21I	YACGTR	2 cut(s)	18, 417
PscI	ACATGT	1 cut(s)	682
PspFI	CCCAGC	1 cut(s)	299
PspN4I	GGNNCC	1 cut(s)	173
PsuI	RGATCY	1 cut(s)	379
RsaI	GTAC	1 cut(s)	924
RsaNI	GTAC	1 cut(s)	923
RseI	CAYNNNNRTG	1 cut(s)	165
Sau3AI	GATC	3 cut(s)	99, 379, 639
SchI	GAGTC	1 cut(s)	748
SfaNI	GCATC	3 cut(s)	39, 147, 424
SmiMI	CAYNNNNRTG	1 cut(s)	165
SmlI	CTYRAG	1 cut(s)	665
SmoI	CTYRAG	1 cut(s)	665
SnaBI	TACGTA	1 cut(s)	417
Sse9I	AATT	6 cut(s)	95, 287, 526, 560, 631, 646
SsiI	CCGC	3 cut(s)	61, 677, 1047
SspMI	CTAG	2 cut(s)	783, 1040
StyI	CCWWGG	5 cut(s)	225, 603, 879, 969, 999
TaiI	ACGT	3 cut(s)	20, 419, 944
TaqI	TCGA	2 cut(s)	346, 564
TasI	AATT	6 cut(s)	95, 287, 526, 560, 631, 646
TfiI	GAWTC	3 cut(s)	470, 539, 809
TscAI	CASTG	1 cut(s)	506
TseFI	GTSAC	2 cut(s)	26, 307
Tsp45I	GTSAC	2 cut(s)	26, 307
TspDTI	ATGAA	8 cut(s)	246, 290, 503, 531, 715, 722, 881, 1070
TspGWI	ACGGA	2 cut(s)	463, 1066
TspRI	CASTG	1 cut(s)	506
Vha464I	CTTAAG	1 cut(s)	665
XapI	RAATTY	1 cut(s)	560
XbaI	TCTAGA	1 cut(s)	1039
XceI	RCATGY	1 cut(s)	686
XspI	CTAG	2 cut(s)	783, 1040
Zsp2I	ATGCAT	2 cut(s)	162, 439

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