Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr14

Orthogroup ID

OG0005088

Physical Location & Seq

Genomic Coordinates Forward (+)

28109034 .. 28113475

Gene Structure 4442 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD14G1189700.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1245 bp

ATGGCTTCTCCGACCGAAACTCCGTCGGCGAACATCTACATATCGCCGGAGTGGTCCGAGGCAGTAGACTGTATAGCGTACGATTCAGTCACTTCGCCGCCTCCCATTGCCTTAGTATGTGGTGCCAAAAACTGCGGAAAATCCTCCTTTTCCCGCCACCTCCTCAACATTCTTCTCCGGAGGTATAAAAAAGTTGGTTACTTGGATACAGATGTTGGTCAACCTGAGTTCAGTCCTCCTGGTTTTTTATCTCTAACTGTAGTAGATGAAGTCACTCCAGGCAATTGCTTATTTTCTGCACTTATTGTGAATAATTTGCTCTGGAATTTAAAAGGATTGTTAATCATATTTGACAATCCCGCATCTGAAGACACCGAAGAGGAATCTTGGAATCTGATGATTTATCATTTGTTCCTTTTTCTCAGATGTCTTTTCTTTGGTGACGTTTCTTCAAAGACAAATCCTACAACGTACTTGAATTCTATATTCGCTTTATATGATTATTATAAGAAGGAATACTGCTTGTTTAACCAGAGTGATAGACCTACCAAGAAGATCGGATTGCCTCTTGTTGTGAATACACCTGGCTGGGTGAAAGGTGTTGGTTATGATATATTGGTGGATATGTTGAAGTATATTGCCCCTACCCATGTTGTTAAAATAAACATATCGGCCGAGAGTAAGAATCTACCAAGTGGGGTATTCTGGTTAGATGAGGATCATGACGCTATGCTCAAGCTGATAGAGATCAATTCAGCTCGTCAGGACTCTTTCAATAGATCGATTCTAGTACAAAAGGATGCACACCTGTTGCGTGATGTACGAATAATGGCTTATTTCAGGCAGTGCTTTTCAAGTAGCCTGAACATTACTACAATCAAAGAACTTGCTAATGCTTTGGCCTCTCAACCTCCTTATGAAGTTCCAATATCTAGCATTAAGATTAGACATCTCCATTGTCAGGTCCCAGGTGCTGAGATCTTCTACAGTTTGAACGCAACCATTGTTGGGTTGGCAGTTAGCTCTCAAGGATCAAAGGATTTACCTTGGTGTGTTGGTCTTGGAATTGTGAGAGGCATTGACACTTTCAAAGGCTTGCTATATGTGATAACACCGGTTCCAAGAGGCACTCTGGAGAAGGTCGATCTATTTCTGCAAGGTTATATCCAAATTCCTACGGTGTTGTTGCAGGTCCAGGGATGCATATCGCCTTATATGTCTGCGAATGTTCTGTCTACAAGCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000448 GO:0000460 GO:0000463 GO:0000466 GO:0000469 GO:0000470 GO:0000478 GO:0000479 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0019205 GO:0022613 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0042273 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044085 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0051731 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CLP1_P

Protein Analysis

415

Amino Acids

46.05

Weight (kDa)

6.0

Isoelectric Point (pI)

46.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CLP1_P	PF16575	41 - 94	7.3e-17	mRNA cleavage and polyadenylation factor CLP1 P-loop
CLP1_P	PF16575	143 - 280	5.5e-12	mRNA cleavage and polyadenylation factor CLP1 P-loop
NOL9_C	PF25467	302 - 392	7.8e-32	NOL9-like, C-terminal domain

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: OG0005088)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G11010 AT5G11010 AT5G11010 AT5G11010
fragaria_vesca	FvH4_5g16020 FvH4_5g16020 FvH4_5g16020 FvH4_5g16020
malus_domestica	MD06G1183600.v1.1 MD14G1057100.v1.1 MD14G1189700.v1.1
prunus_persica	Prupe.5G161200_v2.0.a1 Prupe.5G182300_v2.0.a1 Prupe.5G182300_v2.0.a1
pyrus_communis	pycom06g16270 pycom14g15720
rosa_chinensis	RchiOBHm_Chr7g0180051
rosa_laevigata	RLG00000005299
rosa_multiflora	Rmu_co8044072.1_g000001 Rmu_sc0002219.1_g000023 Rmu_sc0017616.1_g000001 Rmu_ssc0000119.1_g000025
rosa_roxburghii	Rroxscaffold_3G00273170
rosa_rugosa	Rorug06G0430200 Rorug06G0430200
rosa_samantha	Rh7AG030400 Rh7BG030300 Rh7CG032100 Rh7DG031100
rosa_wichuraiana	Rw7G002530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	507
Acc36I	ACCTGC	1 cut(s)	1180
AccB1I	GGYRCC	1 cut(s)	122
AccI	GTMKAC	2 cut(s)	66, 1235
AccIII	TCCGGA	1 cut(s)	177
AciI	CCGC	4 cut(s)	98, 135, 154, 360
AclWI	GGATC	2 cut(s)	726, 1039
AcoI	YGGCCR	1 cut(s)	672
AcsI	RAATTY	3 cut(s)	325, 478, 1170
AcuI	CTGAAG	1 cut(s)	387
AfaI	GTAC	4 cut(s)	80, 473, 792, 822
AfiI	CCNNNNNNNGG	2 cut(s)	961, 1008
AgeI	ACCGGT	1 cut(s)	1114
AgsI	TTSAA	7 cut(s)	453, 478, 631, 775, 855, 994, 1090
AjnI	CCWGG	5 cut(s)	238, 277, 583, 967, 1194
AluBI	AGCT	4 cut(s)	739, 758, 1023, 1242
AluI	AGCT	4 cut(s)	739, 758, 1023, 1242
AlwI	GGATC	2 cut(s)	726, 1039
AlwNI	CAGNNNCTG	1 cut(s)	974
Aor13HI	TCCGGA	1 cut(s)	177
AoxI	GGCC	2 cut(s)	672, 900
ApoI	RAATTY	3 cut(s)	325, 478, 1170
ArsI	GACNNNNNNTTYG	1 cut(s)	1217
AsiGI	ACCGGT	1 cut(s)	1114
AspS9I	GGNCC	3 cut(s)	54, 964, 1192
AsuHPI	GGTGA	2 cut(s)	452, 604
AvaII	GGWCC	3 cut(s)	54, 964, 1192
BaeI	ACNNNNGTAYC	2 cut(s)	198, 231
BanI	GGYRCC	1 cut(s)	122
BbsI	GAAGAC	1 cut(s)	375
BciT130I	CCWGG	5 cut(s)	240, 279, 585, 969, 1196
BciVI	GTATCC	1 cut(s)	199
BfaI	CTAG	2 cut(s)	788, 933
BfmI	CTRYAG	2 cut(s)	258, 985
BfuAI	ACCTGC	1 cut(s)	1180
BfuI	GTATCC	1 cut(s)	199
BglII	AGATCT	1 cut(s)	978
BisI	GCNGC	1 cut(s)	98
BlsI	GCNGC	1 cut(s)	99
Bme1390I	CCNGG	5 cut(s)	240, 279, 585, 969, 1196
Bme18I	GGWCC	3 cut(s)	54, 964, 1192
BmgT120I	GGNCC	3 cut(s)	54, 964, 1192
BmiI	GGNNCC	3 cut(s)	124, 966, 1119
BmrFI	CCNGG	5 cut(s)	240, 279, 585, 969, 1196
BmsI	GCATC	3 cut(s)	371, 790, 1190
BpiI	GAAGAC	1 cut(s)	375
BpmI	CTGGAG	2 cut(s)	261, 1154
BpuEI	CTTGAG	2 cut(s)	719, 1011
Bsa29I	ATCGAT	1 cut(s)	782
BsaBI	GATNNNNATC	3 cut(s)	717, 746, 1204
BsaJI	CCNNGG	4 cut(s)	57, 967, 1046, 1195
BsaWI	WCCGGW	2 cut(s)	177, 1114
BsaXI	ACNNNNNCTCC	1 cut(s)	34
Bsc4I	CCNNNNNNNGG	2 cut(s)	961, 1008
Bse118I	RCCGGY	1 cut(s)	1114
Bse3DI	GCAATG	1 cut(s)	105
Bse8I	GATNNNNATC	3 cut(s)	717, 746, 1204
BseAI	TCCGGA	1 cut(s)	177
BseBI	CCWGG	5 cut(s)	240, 279, 585, 969, 1196
BseCI	ATCGAT	1 cut(s)	782
BseDI	CCNNGG	4 cut(s)	57, 967, 1046, 1195
BseGI	GGATG	2 cut(s)	805, 1205
BseJI	GATNNNNATC	3 cut(s)	717, 746, 1204
BseLI	CCNNNNNNNGG	2 cut(s)	961, 1008
BseMI	GCAATG	1 cut(s)	105
BseMII	CTCAG	3 cut(s)	216, 436, 966
BseRI	GAGGAG	1 cut(s)	152
BseX3I	CGGCCG	1 cut(s)	672
BseYI	CCCAGC	1 cut(s)	588
BsgI	GTGCAG	1 cut(s)	282
Bsh1285I	CGRYCG	2 cut(s)	15, 675
BshFI	GGCC	2 cut(s)	674, 902
BshNI	GGYRCC	1 cut(s)	122
BshTI	ACCGGT	1 cut(s)	1114
BshVI	ATCGAT	1 cut(s)	782
BsiEI	CGRYCG	2 cut(s)	15, 675
BsiSI	CCGG	3 cut(s)	47, 178, 1115
BsiWI	CGTACG	1 cut(s)	78
BslFI	GGGAC	1 cut(s)	950
BslI	CCNNNNNNNGG	2 cut(s)	961, 1008
BsmFI	GGGAC	1 cut(s)	950
BsnI	GGCC	2 cut(s)	674, 902
Bsp13I	TCCGGA	1 cut(s)	177
Bsp143I	GATC	7 cut(s)	555, 718, 747, 779, 978, 1031, 1144
BspACI	CCGC	4 cut(s)	98, 135, 154, 360
BspANI	GGCC	2 cut(s)	674, 902
BspCNI	CTCAG	3 cut(s)	217, 435, 967
BspDI	ATCGAT	1 cut(s)	782
BspEI	TCCGGA	1 cut(s)	177
BspHI	TCATGA	1 cut(s)	721
BspLI	GGNNCC	3 cut(s)	124, 966, 1119
BspMI	ACCTGC	1 cut(s)	1180
BspPI	GGATC	2 cut(s)	726, 1039
BspT107I	GGYRCC	1 cut(s)	122
BsrDI	GCAATG	1 cut(s)	105
BsrFI	RCCGGY	1 cut(s)	1114
BssAI	RCCGGY	1 cut(s)	1114
BssECI	CCNNGG	4 cut(s)	57, 967, 1046, 1195
BssMI	GATC	7 cut(s)	555, 718, 747, 779, 978, 1031, 1144
BssT1I	CCWWGG	1 cut(s)	1046
Bst2UI	CCWGG	5 cut(s)	240, 279, 585, 969, 1196
Bst4CI	ACNGT	4 cut(s)	71, 259, 989, 1180
Bst6I	CTCTTC	1 cut(s)	372
BstC8I	GCNNGC	1 cut(s)	1097
BstDEI	CTNAG	4 cut(s)	112, 225, 422, 975
BstF5I	GGATG	2 cut(s)	805, 1205
BstKTI	GATC	7 cut(s)	558, 721, 750, 782, 981, 1034, 1147
BstMBI	GATC	7 cut(s)	555, 718, 747, 779, 978, 1031, 1144
BstMCI	CGRYCG	2 cut(s)	15, 675
BstNI	CCWGG	5 cut(s)	240, 279, 585, 969, 1196
BstSCI	CCNGG	5 cut(s)	238, 277, 583, 967, 1194
BstSFI	CTRYAG	2 cut(s)	258, 985
BstV2I	GAAGAC	1 cut(s)	375
BstX2I	RGATCY	1 cut(s)	978
BstYI	RGATCY	1 cut(s)	978
BstZI	CGGCCG	1 cut(s)	672
Bsu15I	ATCGAT	1 cut(s)	782
BsuI	GTATCC	1 cut(s)	199
BsuRI	GGCC	2 cut(s)	674, 902
BsuTUI	ATCGAT	1 cut(s)	782
BtsCI	GGATG	2 cut(s)	805, 1205
BtsI	GCAGTG	1 cut(s)	851
BtsIMutI	CAGTG	1 cut(s)	851
BveI	ACCTGC	1 cut(s)	1180
Cac8I	GCNNGC	1 cut(s)	1097
CaiI	CAGNNNCTG	1 cut(s)	974
CciI	TCATGA	1 cut(s)	721
Cfr10I	RCCGGY	1 cut(s)	1114
Cfr13I	GGNCC	3 cut(s)	54, 964, 1192
ClaI	ATCGAT	1 cut(s)	782
CseI	GACGC	1 cut(s)	734
Csp6I	GTAC	4 cut(s)	79, 472, 791, 821
CspAI	ACCGGT	1 cut(s)	1114
CviAII	CATG	2 cut(s)	650, 722
CviQI	GTAC	4 cut(s)	79, 472, 791, 821
DdeI	CTNAG	4 cut(s)	112, 225, 422, 975
DpnI	GATC	7 cut(s)	557, 720, 749, 781, 980, 1033, 1146
DpnII	GATC	7 cut(s)	555, 718, 747, 779, 978, 1031, 1144
DraI	TTTAAA	1 cut(s)	330
EaeI	YGGCCR	1 cut(s)	672
EagI	CGGCCG	1 cut(s)	672
Eam1104I	CTCTTC	1 cut(s)	372
EarI	CTCTTC	1 cut(s)	372
EclXI	CGGCCG	1 cut(s)	672
Eco130I	CCWWGG	1 cut(s)	1046
Eco47I	GGWCC	3 cut(s)	54, 964, 1192
Eco52I	CGGCCG	1 cut(s)	672
Eco57I	CTGAAG	1 cut(s)	387
EcoO109I	RGGNCCY	1 cut(s)	964
EcoRI	GAATTC	1 cut(s)	478
EcoRII	CCWGG	5 cut(s)	238, 277, 583, 967, 1194
EcoT14I	CCWWGG	1 cut(s)	1046
EcoT22I	ATGCAT	1 cut(s)	1205
ErhI	CCWWGG	1 cut(s)	1046
FaeI	CATG	2 cut(s)	653, 725
FaqI	GGGAC	1 cut(s)	950
FatI	CATG	2 cut(s)	649, 721
FauI	CCCGC	2 cut(s)	161, 367
FblI	GTMKAC	2 cut(s)	66, 1235
Fnu4HI	GCNGC	1 cut(s)	98
FokI	GGATG	2 cut(s)	812, 1212
Fsp4HI	GCNGC	1 cut(s)	98
FspBI	CTAG	2 cut(s)	788, 933
GluI	GCNGC	1 cut(s)	98
GsaI	CCCAGC	1 cut(s)	592
GsuI	CTGGAG	2 cut(s)	261, 1154
HaeIII	GGCC	2 cut(s)	674, 902
HapII	CCGG	3 cut(s)	47, 178, 1115
HgaI	GACGC	1 cut(s)	734
Hin1II	CATG	2 cut(s)	653, 725
HincII	GTYRAC	1 cut(s)	221
HindII	GTYRAC	1 cut(s)	221
HinfI	GANTC	6 cut(s)	83, 383, 391, 685, 767, 784
HpaII	CCGG	3 cut(s)	47, 178, 1115
HphI	GGTGA	2 cut(s)	452, 604
Hpy166II	GTNNAC	3 cut(s)	67, 221, 1236
Hpy188I	TCNGA	6 cut(s)	12, 58, 367, 396, 425, 560
Hpy188III	TCNNGA	5 cut(s)	178, 322, 722, 764, 1133
Hpy8I	GTNNAC	3 cut(s)	67, 221, 1236
Hpy99I	CGWCG	1 cut(s)	28
HpyAV	CCTTC	2 cut(s)	505, 1132
HpyCH4III	ACNGT	4 cut(s)	71, 259, 989, 1180
HpyCH4IV	ACGT	2 cut(s)	444, 470
HpyCH4V	TGCA	5 cut(s)	299, 803, 1156, 1189, 1203
HpyF3I	CTNAG	4 cut(s)	112, 225, 422, 975
HpySE526I	ACGT	2 cut(s)	444, 470
Hsp92II	CATG	2 cut(s)	653, 725
Kpn2I	TCCGGA	1 cut(s)	177
Kzo9I	GATC	7 cut(s)	555, 718, 747, 779, 978, 1031, 1144
LweI	GCATC	3 cut(s)	371, 790, 1190
MaeI	CTAG	2 cut(s)	788, 933
MaeII	ACGT	2 cut(s)	444, 470
MaeIII	GTNAC	4 cut(s)	88, 197, 271, 440
MalI	GATC	7 cut(s)	557, 720, 749, 781, 980, 1033, 1146
MboI	GATC	7 cut(s)	555, 718, 747, 779, 978, 1031, 1144
MboII	GAAGA	6 cut(s)	164, 380, 389, 441, 565, 973
MfeI	CAATTG	1 cut(s)	283
MflI	RGATCY	1 cut(s)	978
MluCI	AATT	7 cut(s)	283, 313, 325, 478, 751, 1065, 1170
MlyI	GAGTC	1 cut(s)	761
MmeI	TCCRAC	1 cut(s)	35
Mph1103I	ATGCAT	1 cut(s)	1205
MroI	TCCGGA	1 cut(s)	177
MseI	TTAA	5 cut(s)	329, 341, 528, 657, 939
MspI	CCGG	3 cut(s)	47, 178, 1115
MspR9I	CCNGG	5 cut(s)	240, 279, 585, 969, 1196
MunI	CAATTG	1 cut(s)	283
MvaI	CCWGG	5 cut(s)	240, 279, 585, 969, 1196
NdeII	GATC	7 cut(s)	555, 718, 747, 779, 978, 1031, 1144
NlaIII	CATG	2 cut(s)	653, 725
NlaIV	GGNNCC	3 cut(s)	124, 966, 1119
NmeAIII	GCCGAG	1 cut(s)	700
NmuCI	GTSAC	3 cut(s)	88, 271, 440
NsiI	ATGCAT	1 cut(s)	1205
PagI	TCATGA	1 cut(s)	721
PfeI	GAWTC	5 cut(s)	83, 383, 391, 685, 784
Pfl23II	CGTACG	1 cut(s)	78
PinAI	ACCGGT	1 cut(s)	1114
PkrI	GCNGC	1 cut(s)	99
PleI	GAGTC	1 cut(s)	761
PpsI	GAGTC	1 cut(s)	761
PpuMI	RGGWCCY	1 cut(s)	964
PsiI	TTATAA	1 cut(s)	507
Psp5II	RGGWCCY	1 cut(s)	964
Psp6I	CCWGG	5 cut(s)	238, 277, 583, 967, 1194
PspFI	CCCAGC	1 cut(s)	588
PspGI	CCWGG	5 cut(s)	238, 277, 583, 967, 1194
PspLI	CGTACG	1 cut(s)	78
PspN4I	GGNNCC	3 cut(s)	124, 966, 1119
PspPI	GGNCC	3 cut(s)	54, 964, 1192
PspPPI	RGGWCCY	1 cut(s)	964
PstNI	CAGNNNCTG	1 cut(s)	974
PsuI	RGATCY	1 cut(s)	978
RsaI	GTAC	4 cut(s)	80, 473, 792, 822
RsaNI	GTAC	4 cut(s)	79, 472, 791, 821
SaqAI	TTAA	5 cut(s)	329, 341, 528, 657, 939
SatI	GCNGC	1 cut(s)	98
Sau3AI	GATC	7 cut(s)	555, 718, 747, 779, 978, 1031, 1144
Sau96I	GGNCC	3 cut(s)	54, 964, 1192
SchI	GAGTC	1 cut(s)	761
ScrFI	CCNGG	5 cut(s)	240, 279, 585, 969, 1196
SfaNI	GCATC	3 cut(s)	371, 790, 1190
SfcI	CTRYAG	2 cut(s)	258, 985
SinI	GGWCC	3 cut(s)	54, 964, 1192
SmlI	CTYRAG	2 cut(s)	734, 1026
SmoI	CTYRAG	2 cut(s)	734, 1026
Sse9I	AATT	7 cut(s)	283, 313, 325, 478, 751, 1065, 1170
SsiI	CCGC	4 cut(s)	98, 135, 154, 360
SspMI	CTAG	2 cut(s)	788, 933
StyD4I	CCNGG	5 cut(s)	238, 277, 583, 967, 1194
StyI	CCWWGG	1 cut(s)	1046
TaaI	ACNGT	4 cut(s)	71, 259, 989, 1180
TaiI	ACGT	2 cut(s)	447, 473
TaqI	TCGA	2 cut(s)	782, 1143
TaqII	GACCGA	1 cut(s)	29
TasI	AATT	7 cut(s)	283, 313, 325, 478, 751, 1065, 1170
TatI	WGTACW	1 cut(s)	790
TauI	GCSGC	1 cut(s)	100
TfiI	GAWTC	5 cut(s)	83, 383, 391, 685, 784
Tru1I	TTAA	5 cut(s)	329, 341, 528, 657, 939
Tru9I	TTAA	5 cut(s)	329, 341, 528, 657, 939
TscAI	CASTG	1 cut(s)	851
TseFI	GTSAC	3 cut(s)	88, 271, 440
Tsp45I	GTSAC	3 cut(s)	88, 271, 440
TspDTI	ATGAA	2 cut(s)	282, 933
TspGWI	ACGGA	1 cut(s)	12
TspRI	CASTG	1 cut(s)	851
VpaK11BI	GGWCC	3 cut(s)	54, 964, 1192
XapI	RAATTY	3 cut(s)	325, 478, 1170
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1009
XmiI	GTMKAC	2 cut(s)	66, 1235
XspI	CTAG	2 cut(s)	788, 933
Zsp2I	ATGCAT	1 cut(s)	1205

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