Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr13

Orthogroup ID

OG0005591

Physical Location & Seq

Genomic Coordinates Forward (+)

12122409 .. 12125844

Gene Structure 3436 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD13G1155600.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1314 bp

ATGGAAAGCTTCGGTGGCGCTGGGTTTTCGCCTGGAGGTTGCATTGTCAGGAAGAAGAGGAGTATCATATCACATAAACCTCGGTTAAATCCACCGACATTTTCACTCAGCTATAATATCCCTATTGGCAAAGGAACCATTGATGGGAATCAGAATAATAAGAAGAAAATAGTGCGTTCTGATGGATTGGGAAGTAAGAACAACCCGAAGAAGTTAAAGCTTAAGTTTGGAGGTGTTACTCGTACACTCAACACCAAGTATATAGCAGATGTTGGCAATGATGGTGGCTCGTCCACCGCTAAATCTTTAAGCTCTTTAGATGCCTTCACACCCCAACTGAATCCCCTTCCCCTTGCTCTGGATGATGCAGGTGGAGGTGGGGTCAATGAGCCAGTTCGGAAGAGCAAGCGGGCTCCTAAGAGAAGCGCCTTGGATGCTGGATTTAATGAAGATGACGATGAAGATGAAGAAATCCGATTCCTTGGAAGACTAAGTGCATCTAAGGTTGCTCGTTCAGAGAGAATTCAAATGGACGTTCGCTTTCATGGATATGATAGTGGAGACTATAAATCATCAAGGCTAGGAACAGCTAGTAAAAATAGGTCAAGGTCAGAAAAAATGCACGAGGATAAAGAGTATTTGGGAGAAGACGATGAAGAAGAATTAACATCTGATGATGAACCTGAACCAAATGGGAAGAAGCTGAAAACAGGATCTCTTAGTCTACTTCTAGAAGGGCGGAAAGAATCAACCCTCACTACACGTAACCGGACCCTCCAGCCTGGAAAAGATATTTTACCTGGTTCAGGTTTTCTTGACATTGCAAGTGATTTGCTTTCTGTCCCATGTAAAAGCAAGAAGGATAAAATGTCTGAAGTGGAACGGCAATTAAAGAAAGCTGAGGCTGCACAGAGACGGAAAGTGAAGTTAGAGAATGCAGCTAGGGAAGCTGAGGCTGGGGCAATCAGAAGAATACTGGGTCAAGATTCCAAGAAGAAGAAGGAAGAAAAACTGAAGCAGCAAAGGGACGAATTGAATAAGGGGAGGACCGGCTGTCCTGTCACACTGGCACCAAACACTGTCCGATGGGTTGTCGGTCCTAATGGAACCACCGTTACATTTTCTGATGATATTGGTCTGCCTAGTATTTTCAGTCCAGTGCCTTGCAGCTATCCTCCCCCACGCGAAAAATGTGCGGGTCCAAATTGCACGAATGCATACAAGTATCGGGATTCCAAGTCGAAGCTTCCCCTGTGCAGTCTCCAGTGTTACAGGGCAATACACGAAAAGATGCAGCCTCTAATTACTTGCTGA

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

PAPA-1 zf-HIT

Protein Analysis

438

Amino Acids

47.94

Weight (kDa)

9.45

Isoelectric Point (pI)

49.15

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAPA-1	PF04795	294 - 377	1.6e-18	PAPA-1-like conserved region
zf-HIT	PF04438	394 - 425	8e-07	HIT zinc finger

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: OG0005591)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G06660
fragaria_vesca	FvH4_4g19561 FvH4_4g19561 FvH4_4g19561 FvH4_4g19561 FvH4_4g19561
malus_domestica	MD13G1155600.v1.1 MD16G1155300.v1.1
prunus_persica	Prupe.1G118900_v2.0.a1 Prupe.1G118900_v2.0.a1 Prupe.1G118900_v2.0.a1 Prupe.1G118900_v2.0.a1 Prupe.1G118900_v2.0.a1 Prupe.1G118900_v2.0.a1 Prupe.1G118900_v2.0.a1
pyrus_communis	pycom13g13260
rosa_chinensis	RchiOBHm_Chr4g0424821
rosa_laevigata	RLG00000007419
rosa_multiflora	Rmu_sc0003608.1_g000022 Rmu_sc0007418.1_g000001
rosa_roxburghii	Rroxscaffold_5G00367040
rosa_rugosa	Rorug04G0199300
rosa_samantha	Rh4AG257100 Rh4BG262400 Rh4CG273400 Rh4DG258200
rosa_wichuraiana	Rw4G022180 Rw4G024040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	359
Acc36I	ACCTGC	1 cut(s)	359
AccB1I	GGYRCC	1 cut(s)	1069
AccI	GTMKAC	1 cut(s)	724
AccII	CGCG	1 cut(s)	1185
AciI	CCGC	4 cut(s)	297, 409, 739, 1196
AclWI	GGATC	1 cut(s)	721
AcsI	RAATTY	1 cut(s)	522
AcuI	CTGAAG	2 cut(s)	894, 1034
AfaI	GTAC	1 cut(s)	244
AfiI	CCNNNNNNNGG	3 cut(s)	144, 358, 806
AflII	CTTAAG	1 cut(s)	221
AflIII	ACRYGT	1 cut(s)	761
AgsI	TTSAA	2 cut(s)	527, 1036
AhdI	GACNNNNNGTC	1 cut(s)	1053
AjnI	CCWGG	3 cut(s)	31, 781, 799
Alw26I	GTCTC	3 cut(s)	555, 907, 1265
AlwI	GGATC	1 cut(s)	721
ApeKI	GCWGC	5 cut(s)	905, 938, 1018, 1167, 1294
ApoI	RAATTY	1 cut(s)	522
AspLEI	GCGC	2 cut(s)	20, 428
AspS9I	GGNCC	4 cut(s)	771, 1047, 1097, 1199
AvaII	GGWCC	4 cut(s)	771, 1047, 1097, 1199
BanI	GGYRCC	1 cut(s)	1069
BanII	GRGCYC	1 cut(s)	415
BauI	CACGAG	1 cut(s)	623
BbsI	GAAGAC	2 cut(s)	493, 654
BbvCI	CCTCAGC	2 cut(s)	900, 951
BbvI	GCAGC	5 cut(s)	892, 950, 1030, 1179, 1306
BccI	CCATC	4 cut(s)	137, 176, 275, 1080
BceAI	ACGGC	1 cut(s)	899
BcgI	CGANNNNNNTGC	2 cut(s)	1175, 1209
BciT130I	CCWGG	3 cut(s)	33, 783, 801
BcoDI	GTCTC	3 cut(s)	555, 907, 1265
BfaI	CTAG	5 cut(s)	581, 591, 731, 942, 1143
BfoI	RGCGCY	2 cut(s)	21, 429
BfrI	CTTAAG	1 cut(s)	221
BfuAI	ACCTGC	1 cut(s)	359
BisI	GCNGC	5 cut(s)	906, 939, 1019, 1168, 1295
BlsI	GCNGC	5 cut(s)	907, 940, 1020, 1169, 1296
Bme1390I	CCNGG	3 cut(s)	33, 783, 801
Bme18I	GGWCC	4 cut(s)	771, 1047, 1097, 1199
BmeRI	GACNNNNNGTC	1 cut(s)	1053
BmgT120I	GGNCC	4 cut(s)	771, 1047, 1097, 1199
BmiI	GGNNCC	6 cut(s)	136, 414, 773, 1071, 1108, 1200
BmrFI	CCNGG	3 cut(s)	33, 783, 801
BmrI	ACTGGG	1 cut(s)	986
BmsI	GCATC	5 cut(s)	310, 355, 424, 506, 1281
BmuI	ACTGGG	1 cut(s)	986
BpiI	GAAGAC	2 cut(s)	493, 654
BpmI	CTGGAG	3 cut(s)	54, 761, 1247
Bpu10I	CCTNAGC	2 cut(s)	900, 951
BsaAI	YACGTR	1 cut(s)	764
BsaBI	GATNNNNATC	1 cut(s)	147
BsaJI	CCNNGG	3 cut(s)	80, 429, 481
BsaWI	WCCGGW	1 cut(s)	768
BsaXI	ACNNNNNCTCC	2 cut(s)	366, 396
Bsc4I	CCNNNNNNNGG	3 cut(s)	144, 358, 806
Bse118I	RCCGGY	1 cut(s)	1049
Bse1I	ACTGG	5 cut(s)	392, 981, 1071, 1157, 1264
Bse3DI	GCAATG	2 cut(s)	283, 819
Bse8I	GATNNNNATC	1 cut(s)	147
BseBI	CCWGG	3 cut(s)	33, 783, 801
BseDI	CCNNGG	3 cut(s)	80, 429, 481
BseGI	GGATG	2 cut(s)	367, 439
BseJI	GATNNNNATC	1 cut(s)	147
BseLI	CCNNNNNNNGG	3 cut(s)	144, 358, 806
BseMI	GCAATG	2 cut(s)	283, 819
BseMII	CTCAG	3 cut(s)	121, 891, 942
BseNI	ACTGG	5 cut(s)	392, 981, 1071, 1157, 1264
BseRI	GAGGAG	1 cut(s)	73
BseXI	GCAGC	5 cut(s)	892, 950, 1030, 1179, 1306
BseYI	CCCAGC	2 cut(s)	20, 956
BsgI	GTGCAG	2 cut(s)	891, 1276
Bsh1236I	CGCG	1 cut(s)	1185
BshNI	GGYRCC	1 cut(s)	1069
BsiSI	CCGG	2 cut(s)	769, 1050
BslFI	GGGAC	2 cut(s)	827, 1040
BslI	CCNNNNNNNGG	3 cut(s)	144, 358, 806
BsmAI	GTCTC	3 cut(s)	555, 907, 1265
BsmBI	CGTCTC	1 cut(s)	907
BsmFI	GGGAC	2 cut(s)	827, 1040
BsmI	GAATGC	2 cut(s)	940, 1219
Bsp1286I	GDGCHC	1 cut(s)	415
Bsp143I	GATC	1 cut(s)	713
BspACI	CCGC	4 cut(s)	297, 409, 739, 1196
BspCNI	CTCAG	3 cut(s)	120, 892, 943
BspFNI	CGCG	1 cut(s)	1185
BspLI	GGNNCC	6 cut(s)	136, 414, 773, 1071, 1108, 1200
BspMI	ACCTGC	1 cut(s)	359
BspPI	GGATC	1 cut(s)	721
BspQI	GCTCTTC	1 cut(s)	395
BspT107I	GGYRCC	1 cut(s)	1069
BspTI	CTTAAG	1 cut(s)	221
BsrDI	GCAATG	2 cut(s)	283, 819
BsrFI	RCCGGY	1 cut(s)	1049
BsrI	ACTGG	5 cut(s)	392, 981, 1071, 1157, 1264
BssAI	RCCGGY	1 cut(s)	1049
BssECI	CCNNGG	3 cut(s)	80, 429, 481
BssMI	GATC	1 cut(s)	713
BssSI	CACGAG	1 cut(s)	623
BssT1I	CCWWGG	2 cut(s)	429, 481
Bst2BI	CACGAG	1 cut(s)	623
Bst2UI	CCWGG	3 cut(s)	33, 783, 801
Bst4CI	ACNGT	2 cut(s)	1081, 1114
Bst6I	CTCTTC	2 cut(s)	50, 395
BstAFI	CTTAAG	1 cut(s)	221
BstBAI	YACGTR	1 cut(s)	764
BstC8I	GCNNGC	2 cut(s)	407, 411
BstDEI	CTNAG	7 cut(s)	107, 417, 491, 501, 719, 900, 951
BstENI	CCTNNNNNAGG	1 cut(s)	804
BstF5I	GGATG	2 cut(s)	367, 439
BstFNI	CGCG	1 cut(s)	1185
BstH2I	RGCGCY	2 cut(s)	21, 429
BstHHI	GCGC	2 cut(s)	20, 428
BstKTI	GATC	1 cut(s)	716
BstMAI	GTCTC	3 cut(s)	555, 907, 1265
BstMBI	GATC	1 cut(s)	713
BstMWI	GCNNNNNNNGC	4 cut(s)	15, 434, 905, 947
BstNI	CCWGG	3 cut(s)	33, 783, 801
BstSCI	CCNGG	3 cut(s)	31, 781, 799
BstUI	CGCG	1 cut(s)	1185
BstV1I	GCAGC	5 cut(s)	892, 950, 1030, 1179, 1306
BstV2I	GAAGAC	2 cut(s)	493, 654
BstX2I	RGATCY	1 cut(s)	713
BstYI	RGATCY	1 cut(s)	713
BtsCI	GGATG	2 cut(s)	367, 439
BtsIMutI	CAGTG	4 cut(s)	1064, 1077, 1164, 1271
BveI	ACCTGC	1 cut(s)	359
Cac8I	GCNNGC	2 cut(s)	407, 411
CfoI	GCGC	2 cut(s)	20, 428
Cfr10I	RCCGGY	1 cut(s)	1049
Cfr13I	GGNCC	4 cut(s)	771, 1047, 1097, 1199
CsiI	ACCWGGT	1 cut(s)	799
Csp6I	GTAC	1 cut(s)	243
CspCI	CAANNNNNGTGG	2 cut(s)	265, 300
CviAII	CATG	2 cut(s)	545, 846
CviQI	GTAC	1 cut(s)	243
DdeI	CTNAG	7 cut(s)	107, 417, 491, 501, 719, 900, 951
DpnI	GATC	1 cut(s)	715
DpnII	GATC	1 cut(s)	713
DriI	GACNNNNNGTC	1 cut(s)	1053
Eam1104I	CTCTTC	2 cut(s)	50, 395
Eam1105I	GACNNNNNGTC	1 cut(s)	1053
EarI	CTCTTC	2 cut(s)	50, 395
EciI	GGCGGA	1 cut(s)	754
Eco130I	CCWWGG	2 cut(s)	429, 481
Eco24I	GRGCYC	1 cut(s)	415
Eco47I	GGWCC	4 cut(s)	771, 1047, 1097, 1199
Eco57I	CTGAAG	2 cut(s)	894, 1034
EcoNI	CCTNNNNNAGG	1 cut(s)	804
EcoRI	GAATTC	1 cut(s)	522
EcoRII	CCWGG	3 cut(s)	31, 781, 799
EcoT14I	CCWWGG	2 cut(s)	429, 481
EcoT22I	ATGCAT	1 cut(s)	1219
EcoT38I	GRGCYC	1 cut(s)	415
ErhI	CCWWGG	2 cut(s)	429, 481
Esp3I	CGTCTC	1 cut(s)	907
FaeI	CATG	2 cut(s)	548, 849
FaqI	GGGAC	2 cut(s)	827, 1040
FatI	CATG	2 cut(s)	544, 845
FauI	CCCGC	2 cut(s)	402, 1189
FblI	GTMKAC	1 cut(s)	724
Fnu4HI	GCNGC	5 cut(s)	906, 939, 1019, 1168, 1295
FokI	GGATG	2 cut(s)	374, 446
FriOI	GRGCYC	1 cut(s)	415
Fsp4HI	GCNGC	5 cut(s)	906, 939, 1019, 1168, 1295
FspBI	CTAG	5 cut(s)	581, 591, 731, 942, 1143
GlaI	GCGC	2 cut(s)	19, 427
GluI	GCNGC	5 cut(s)	906, 939, 1019, 1168, 1295
GsaI	CCCAGC	2 cut(s)	24, 960
GsuI	CTGGAG	3 cut(s)	54, 761, 1247
HaeII	RGCGCY	2 cut(s)	21, 429
HapII	CCGG	2 cut(s)	769, 1050
HhaI	GCGC	2 cut(s)	20, 428
Hin1II	CATG	2 cut(s)	548, 849
Hin6I	GCGC	2 cut(s)	18, 426
HinP1I	GCGC	2 cut(s)	18, 426
HindIII	AAGCTT	3 cut(s)	7, 218, 1244
HinfI	GANTC	6 cut(s)	148, 340, 477, 746, 986, 1232
HpaII	CCGG	2 cut(s)	769, 1050
Hpy166II	GTNNAC	3 cut(s)	245, 294, 725
Hpy188III	TCNNGA	6 cut(s)	49, 359, 731, 815, 983, 1229
Hpy8I	GTNNAC	3 cut(s)	245, 294, 725
HpyAV	CCTTC	5 cut(s)	334, 356, 728, 853, 994
HpyCH4III	ACNGT	2 cut(s)	1081, 1114
HpyCH4IV	ACGT	2 cut(s)	534, 763
HpyF10VI	GCNNNNNNNGC	4 cut(s)	15, 434, 905, 947
HpyF3I	CTNAG	7 cut(s)	107, 417, 491, 501, 719, 900, 951
HpySE526I	ACGT	2 cut(s)	534, 763
Hsp92II	CATG	2 cut(s)	548, 849
HspAI	GCGC	2 cut(s)	18, 426
Kzo9I	GATC	1 cut(s)	713
LguI	GCTCTTC	1 cut(s)	395
LmnI	GCTCC	1 cut(s)	418
Lsp1109I	GCAGC	5 cut(s)	892, 950, 1030, 1179, 1306
LweI	GCATC	5 cut(s)	310, 355, 424, 506, 1281
MabI	ACCWGGT	1 cut(s)	799
MaeI	CTAG	5 cut(s)	581, 591, 731, 942, 1143
MaeII	ACGT	2 cut(s)	534, 763
MaeIII	GTNAC	5 cut(s)	235, 764, 1060, 1114, 1268
MalI	GATC	1 cut(s)	715
MboI	GATC	1 cut(s)	713
MflI	RGATCY	1 cut(s)	713
MhlI	GDGCHC	1 cut(s)	415
MluCI	AATT	6 cut(s)	522, 662, 887, 1031, 1204, 1302
Mph1103I	ATGCAT	1 cut(s)	1219
MseI	TTAA	7 cut(s)	86, 215, 222, 308, 444, 665, 890
MslI	CAYNNNNRTG	1 cut(s)	549
MspCI	CTTAAG	1 cut(s)	221
MspI	CCGG	2 cut(s)	769, 1050
MspR9I	CCNGG	3 cut(s)	33, 783, 801
Mva1269I	GAATGC	2 cut(s)	940, 1219
MvaI	CCWGG	3 cut(s)	33, 783, 801
MvnI	CGCG	1 cut(s)	1185
MwoI	GCNNNNNNNGC	4 cut(s)	15, 434, 905, 947
NdeII	GATC	1 cut(s)	713
NlaIII	CATG	2 cut(s)	548, 849
NlaIV	GGNNCC	6 cut(s)	136, 414, 773, 1071, 1108, 1200
NmuCI	GTSAC	1 cut(s)	1060
NsiI	ATGCAT	1 cut(s)	1219
PaqCI	CACCTGC	1 cut(s)	359
PciSI	GCTCTTC	1 cut(s)	395
PctI	GAATGC	2 cut(s)	940, 1219
PfeI	GAWTC	6 cut(s)	148, 340, 477, 746, 986, 1232
PkrI	GCNGC	5 cut(s)	907, 940, 1020, 1169, 1296
Ppu21I	YACGTR	1 cut(s)	764
Psp6I	CCWGG	3 cut(s)	31, 781, 799
PspFI	CCCAGC	2 cut(s)	20, 956
PspGI	CCWGG	3 cut(s)	31, 781, 799
PspN4I	GGNNCC	6 cut(s)	136, 414, 773, 1071, 1108, 1200
PspPI	GGNCC	4 cut(s)	771, 1047, 1097, 1199
PsrI	GAACNNNNNNTAC	2 cut(s)	1099, 1131
PsuI	RGATCY	1 cut(s)	713
RsaI	GTAC	1 cut(s)	244
RsaNI	GTAC	1 cut(s)	243
RseI	CAYNNNNRTG	1 cut(s)	549
SapI	GCTCTTC	1 cut(s)	395
SaqAI	TTAA	7 cut(s)	86, 215, 222, 308, 444, 665, 890
SatI	GCNGC	5 cut(s)	906, 939, 1019, 1168, 1295
Sau3AI	GATC	1 cut(s)	713
Sau96I	GGNCC	4 cut(s)	771, 1047, 1097, 1199
ScrFI	CCNGG	3 cut(s)	33, 783, 801
SduI	GDGCHC	1 cut(s)	415
SexAI	ACCWGGT	1 cut(s)	799
SfaNI	GCATC	5 cut(s)	310, 355, 424, 506, 1281
SinI	GGWCC	4 cut(s)	771, 1047, 1097, 1199
SmiMI	CAYNNNNRTG	1 cut(s)	549
SmlI	CTYRAG	1 cut(s)	221
SmoI	CTYRAG	1 cut(s)	221
Sse9I	AATT	6 cut(s)	522, 662, 887, 1031, 1204, 1302
SsiI	CCGC	4 cut(s)	297, 409, 739, 1196
SspMI	CTAG	5 cut(s)	581, 591, 731, 942, 1143
StyD4I	CCNGG	3 cut(s)	31, 781, 799
StyI	CCWWGG	2 cut(s)	429, 481
TaaI	ACNGT	2 cut(s)	1081, 1114
TaiI	ACGT	2 cut(s)	537, 766
TaqI	TCGA	1 cut(s)	1241
TaqII	GACCGA	1 cut(s)	1085
TasI	AATT	6 cut(s)	522, 662, 887, 1031, 1204, 1302
TfiI	GAWTC	6 cut(s)	148, 340, 477, 746, 986, 1232
Tru1I	TTAA	7 cut(s)	86, 215, 222, 308, 444, 665, 890
Tru9I	TTAA	7 cut(s)	86, 215, 222, 308, 444, 665, 890
TscAI	CASTG	4 cut(s)	1071, 1084, 1164, 1271
TseFI	GTSAC	1 cut(s)	1060
TseI	GCWGC	5 cut(s)	905, 938, 1018, 1167, 1294
Tsp45I	GTSAC	1 cut(s)	1060
TspDTI	ATGAA	6 cut(s)	462, 474, 480, 533, 669, 693
TspGWI	ACGGA	1 cut(s)	931
TspRI	CASTG	4 cut(s)	1071, 1084, 1164, 1271
Vha464I	CTTAAG	1 cut(s)	221
VpaK11BI	GGWCC	4 cut(s)	771, 1047, 1097, 1199
XagI	CCTNNNNNAGG	1 cut(s)	804
XapI	RAATTY	1 cut(s)	522
XbaI	TCTAGA	1 cut(s)	730
XmiI	GTMKAC	1 cut(s)	724
XspI	CTAG	5 cut(s)	581, 591, 731, 942, 1143
Zsp2I	ATGCAT	1 cut(s)	1219

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