Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr09

Orthogroup ID

OG0028454

Physical Location & Seq

Genomic Coordinates Forward (+)

3015205 .. 3017375

Gene Structure 2171 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD09G1046100.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 474 bp

ATGGCGCACGGCGGCGGACCAAGGCAGGTGAAACTGGACCGAGAGAGCGAGCTCAGAATCGAAGTCGGCTACGACACCCCTCTCAAGTTCCGCCTGCTCAGCGGCACCGCTGAGATCTTCGGCAACGAGCTCCCCCCTGATATCTGGCTCACACCTTCCCGCCCAGGCTTAAATTTGCTGCAAGCCTTCGTTTTTACTTGGAACGGAGCAACAGTTGAGATGGAGGGCGGTACGGAAACCGAGTACTGGGCTGATGAGAACGGAGACACCGCGCTAAACCCTTGCTGCCCGATGACCCCGATTCTCAGATCACTTGATTTGGGGGCTTCAGTGAAAGAGATTCGAATGGATATCTTCCCAATAGAGTTCACTCTTAAAATTCCCAACGGAATTCCTCCGGTGTCTTATTACACTCTTTTACTCATTGAAATCCCAAATGAACACCCTTTTAAAACCCCTCGGAATCCCAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000394 GO:0003006 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006378 GO:0006379 GO:0006388 GO:0006396 GO:0006397 GO:0006399 GO:0006725 GO:0006793 GO:0006796 GO:0006807 GO:0007275 GO:0008033 GO:0008150 GO:0008152 GO:0008380 GO:0009791 GO:0009908 GO:0009987 GO:0010228 GO:0010467 GO:0016070 GO:0016071 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0019205 GO:0022414 GO:0031123 GO:0031124 GO:0032501 GO:0032502 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043631 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048367 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0051731 GO:0061458 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090567 GO:0099402 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03015 map03015

Pfam Domains

Protein Families

CLP1_N CLP1_P Clp1

Protein Analysis

158

Amino Acids

17.55

Weight (kDa)

4.73

Isoelectric Point (pI)

34.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CLP1_N	PF16573	11 - 87	7.2e-17	N-terminal beta-sandwich domain of polyadenylation factor

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: OG0028454)

Species	Orthologous Gene IDs
malus_domestica	MD09G1046100.v1.1
pyrus_communis	pycom17g04180

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	16
Acc36I	ACCTGC	1 cut(s)	16
AccB1I	GGYRCC	1 cut(s)	104
AccII	CGCG	1 cut(s)	272
AciI	CCGC	8 cut(s)	12, 15, 91, 102, 108, 160, 228, 270
AcsI	RAATTY	3 cut(s)	172, 378, 390
AcuI	CTGAAG	1 cut(s)	312
AfaI	GTAC	2 cut(s)	232, 245
AfiI	CCNNNNNNNGG	1 cut(s)	246
AgsI	TTSAA	1 cut(s)	428
AjnI	CCWGG	1 cut(s)	163
AluBI	AGCT	2 cut(s)	52, 130
AluI	AGCT	2 cut(s)	52, 130
Alw21I	GWGCWC	2 cut(s)	54, 132
Alw26I	GTCTC	1 cut(s)	258
ApeKI	GCWGC	2 cut(s)	178, 285
ApoI	RAATTY	3 cut(s)	172, 378, 390
AspLEI	GCGC	2 cut(s)	7, 274
AspS9I	GGNCC	2 cut(s)	17, 37
AsuHPI	GGTGA	1 cut(s)	40
AsuII	TTCGAA	1 cut(s)	343
AvaII	GGWCC	2 cut(s)	17, 37
BanI	GGYRCC	1 cut(s)	104
BanII	GRGCYC	2 cut(s)	54, 132
Bbv12I	GWGCWC	2 cut(s)	54, 132
BbvI	GCAGC	2 cut(s)	165, 272
BccI	CCATC	1 cut(s)	214
BceAI	ACGGC	1 cut(s)	25
BciT130I	CCWGG	1 cut(s)	165
BcoDI	GTCTC	1 cut(s)	258
BfuAI	ACCTGC	1 cut(s)	16
BglII	AGATCT	1 cut(s)	114
BisI	GCNGC	4 cut(s)	13, 103, 179, 286
BlpI	GCTNAGC	1 cut(s)	98
BlsI	GCNGC	4 cut(s)	14, 104, 180, 287
BmcAI	AGTACT	1 cut(s)	245
Bme1390I	CCNGG	1 cut(s)	165
Bme18I	GGWCC	2 cut(s)	17, 37
BmgT120I	GGNCC	2 cut(s)	17, 37
BmiI	GGNNCC	1 cut(s)	106
BmrFI	CCNGG	1 cut(s)	165
BmrI	ACTGGG	1 cut(s)	256
BmuI	ACTGGG	1 cut(s)	256
Bpu1102I	GCTNAGC	1 cut(s)	98
Bpu14I	TTCGAA	1 cut(s)	343
BpuEI	CTTGAG	1 cut(s)	68
BsaJI	CCNNGG	3 cut(s)	20, 163, 458
BsaWI	WCCGGW	1 cut(s)	397
BsaXI	ACNNNNNCTCC	2 cut(s)	198, 228
Bsc4I	CCNNNNNNNGG	1 cut(s)	246
Bse1I	ACTGG	2 cut(s)	39, 251
BseBI	CCWGG	1 cut(s)	165
BseDI	CCNNGG	3 cut(s)	20, 163, 458
BseLI	CCNNNNNNNGG	1 cut(s)	246
BseMII	CTCAG	4 cut(s)	67, 102, 112, 319
BseNI	ACTGG	2 cut(s)	39, 251
BseXI	GCAGC	2 cut(s)	165, 272
Bsh1236I	CGCG	1 cut(s)	272
BshNI	GGYRCC	1 cut(s)	104
BsiHKAI	GWGCWC	2 cut(s)	54, 132
BsiSI	CCGG	1 cut(s)	398
BslI	CCNNNNNNNGG	1 cut(s)	246
BsmAI	GTCTC	1 cut(s)	258
Bsp119I	TTCGAA	1 cut(s)	343
Bsp1286I	GDGCHC	2 cut(s)	54, 132
Bsp143I	GATC	2 cut(s)	114, 308
Bsp1720I	GCTNAGC	1 cut(s)	98
BspACI	CCGC	8 cut(s)	12, 15, 91, 102, 108, 160, 228, 270
BspCNI	CTCAG	4 cut(s)	66, 103, 111, 318
BspFNI	CGCG	1 cut(s)	272
BspLI	GGNNCC	1 cut(s)	106
BspMI	ACCTGC	1 cut(s)	16
BspT104I	TTCGAA	1 cut(s)	343
BspT107I	GGYRCC	1 cut(s)	104
BsrI	ACTGG	2 cut(s)	39, 251
BssECI	CCNNGG	3 cut(s)	20, 163, 458
BssMI	GATC	2 cut(s)	114, 308
BssT1I	CCWWGG	1 cut(s)	20
Bst2UI	CCWGG	1 cut(s)	165
Bst4CI	ACNGT	1 cut(s)	214
BstBI	TTCGAA	1 cut(s)	343
BstC8I	GCNNGC	3 cut(s)	50, 95, 183
BstDEI	CTNAG	4 cut(s)	53, 98, 111, 305
BstFNI	CGCG	1 cut(s)	272
BstHHI	GCGC	2 cut(s)	7, 274
BstKTI	GATC	2 cut(s)	117, 311
BstMAI	GTCTC	1 cut(s)	258
BstMBI	GATC	2 cut(s)	114, 308
BstMWI	GCNNNNNNNGC	1 cut(s)	99
BstNI	CCWGG	1 cut(s)	165
BstSCI	CCNGG	1 cut(s)	163
BstUI	CGCG	1 cut(s)	272
BstV1I	GCAGC	2 cut(s)	165, 272
BstX2I	RGATCY	1 cut(s)	114
BstYI	RGATCY	1 cut(s)	114
BtsIMutI	CAGTG	1 cut(s)	336
BveI	ACCTGC	1 cut(s)	16
Cac8I	GCNNGC	3 cut(s)	50, 95, 183
CfoI	GCGC	2 cut(s)	7, 274
Cfr13I	GGNCC	2 cut(s)	17, 37
Csp6I	GTAC	2 cut(s)	231, 244
CviJI	RGCY	8 cut(s)	52, 69, 130, 148, 168, 185, 251, 326
CviKI_1	RGCY	8 cut(s)	52, 69, 130, 148, 168, 185, 251, 326
CviQI	GTAC	2 cut(s)	231, 244
DdeI	CTNAG	4 cut(s)	53, 98, 111, 305
DpnI	GATC	2 cut(s)	116, 310
DpnII	GATC	2 cut(s)	114, 308
DraI	TTTAAA	1 cut(s)	451
EciI	GGCGGA	2 cut(s)	30, 80
Ecl136II	GAGCTC	2 cut(s)	52, 130
Eco130I	CCWWGG	1 cut(s)	20
Eco24I	GRGCYC	2 cut(s)	54, 132
Eco32I	GATATC	2 cut(s)	142, 352
Eco47I	GGWCC	2 cut(s)	17, 37
Eco53kI	GAGCTC	2 cut(s)	52, 130
Eco57I	CTGAAG	1 cut(s)	312
EcoICRI	GAGCTC	2 cut(s)	52, 130
EcoRI	GAATTC	1 cut(s)	390
EcoRII	CCWGG	1 cut(s)	163
EcoRV	GATATC	2 cut(s)	142, 352
EcoT14I	CCWWGG	1 cut(s)	20
EcoT38I	GRGCYC	2 cut(s)	54, 132
ErhI	CCWWGG	1 cut(s)	20
FauI	CCCGC	1 cut(s)	167
Fnu4HI	GCNGC	4 cut(s)	13, 103, 179, 286
FriOI	GRGCYC	2 cut(s)	54, 132
Fsp4HI	GCNGC	4 cut(s)	13, 103, 179, 286
GlaI	GCGC	2 cut(s)	6, 273
GluI	GCNGC	4 cut(s)	13, 103, 179, 286
HapII	CCGG	1 cut(s)	398
HhaI	GCGC	2 cut(s)	7, 274
Hin6I	GCGC	2 cut(s)	5, 272
HinP1I	GCGC	2 cut(s)	5, 272
HinfI	GANTC	4 cut(s)	57, 301, 340, 463
HpaII	CCGG	1 cut(s)	398
HphI	GGTGA	1 cut(s)	40
Hpy166II	GTNNAC	1 cut(s)	369
Hpy188I	TCNGA	3 cut(s)	56, 308, 462
Hpy8I	GTNNAC	1 cut(s)	369
HpyAV	CCTTC	2 cut(s)	165, 196
HpyCH4III	ACNGT	1 cut(s)	214
HpyCH4V	TGCA	1 cut(s)	181
HpyF10VI	GCNNNNNNNGC	1 cut(s)	99
HpyF3I	CTNAG	4 cut(s)	53, 98, 111, 305
HspAI	GCGC	2 cut(s)	5, 272
Kzo9I	GATC	2 cut(s)	114, 308
LmnI	GCTCC	2 cut(s)	135, 206
LpnPI	CCDG	9 cut(s)	11, 20, 107, 130, 150, 150, 177, 232, 411
Lsp1109I	GCAGC	2 cut(s)	165, 272
MalI	GATC	2 cut(s)	116, 310
MboI	GATC	2 cut(s)	114, 308
MboII	GAAGA	2 cut(s)	109, 346
MfeI	CAATTG	1 cut(s)	469
MflI	RGATCY	1 cut(s)	114
MhlI	GDGCHC	2 cut(s)	54, 132
MluCI	AATT	4 cut(s)	172, 378, 390, 469
MnlI	CCTC	4 cut(s)	90, 217, 405, 468
MseI	TTAA	3 cut(s)	170, 375, 450
MspA1I	CMGCKG	2 cut(s)	102, 110
MspI	CCGG	1 cut(s)	398
MspR9I	CCNGG	1 cut(s)	165
MunI	CAATTG	1 cut(s)	469
MvaI	CCWGG	1 cut(s)	165
MvnI	CGCG	1 cut(s)	272
MwoI	GCNNNNNNNGC	1 cut(s)	99
NdeII	GATC	2 cut(s)	114, 308
NlaIV	GGNNCC	1 cut(s)	106
NspV	TTCGAA	1 cut(s)	343
PaqCI	CACCTGC	1 cut(s)	16
PfeI	GAWTC	4 cut(s)	57, 301, 340, 463
PkrI	GCNGC	4 cut(s)	14, 104, 180, 287
Psp124BI	GAGCTC	2 cut(s)	54, 132
Psp6I	CCWGG	1 cut(s)	163
PspGI	CCWGG	1 cut(s)	163
PspN4I	GGNNCC	1 cut(s)	106
PspPI	GGNCC	2 cut(s)	17, 37
PsuI	RGATCY	1 cut(s)	114
RsaI	GTAC	2 cut(s)	232, 245
RsaNI	GTAC	2 cut(s)	231, 244
SacI	GAGCTC	2 cut(s)	54, 132
SaqAI	TTAA	3 cut(s)	170, 375, 450
SatI	GCNGC	4 cut(s)	13, 103, 179, 286
Sau3AI	GATC	2 cut(s)	114, 308
Sau96I	GGNCC	2 cut(s)	17, 37
ScaI	AGTACT	1 cut(s)	245
ScrFI	CCNGG	1 cut(s)	165
SduI	GDGCHC	2 cut(s)	54, 132
SetI	ASST	4 cut(s)	30, 54, 132, 157
SfuI	TTCGAA	1 cut(s)	343
SinI	GGWCC	2 cut(s)	17, 37
SmlI	CTYRAG	1 cut(s)	83
SmoI	CTYRAG	1 cut(s)	83
Sse9I	AATT	4 cut(s)	172, 378, 390, 469
SsiI	CCGC	8 cut(s)	12, 15, 91, 102, 108, 160, 228, 270
SstI	GAGCTC	2 cut(s)	54, 132
StyD4I	CCNGG	1 cut(s)	163
StyI	CCWWGG	1 cut(s)	20
TaaI	ACNGT	1 cut(s)	214
TaqI	TCGA	2 cut(s)	60, 343
TaqII	GACCGA	1 cut(s)	54
TasI	AATT	4 cut(s)	172, 378, 390, 469
TatI	WGTACW	1 cut(s)	243
TauI	GCSGC	2 cut(s)	15, 105
TfiI	GAWTC	4 cut(s)	57, 301, 340, 463
Tru1I	TTAA	3 cut(s)	170, 375, 450
Tru9I	TTAA	3 cut(s)	170, 375, 450
TscAI	CASTG	1 cut(s)	336
TseI	GCWGC	2 cut(s)	178, 285
TspDTI	ATGAA	1 cut(s)	453
TspGWI	ACGGA	4 cut(s)	219, 248, 276, 402
TspRI	CASTG	1 cut(s)	336
VpaK11BI	GGWCC	2 cut(s)	17, 37
XapI	RAATTY	3 cut(s)	172, 378, 390
ZrmI	AGTACT	1 cut(s)	245

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