MD12G1060400.v1.1

CDK5RAP3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr12
OG0016943
Physical Location & Seq
Forward (+)
7033274 .. 7038176
4903 bp
Loading structure...
UTR
Exon/CDS
Intron
MD12G1060400.v1.1.491

Sequence Viewer

Length: 744 bp
ATGGTTAATGCAAGTGAGGTGCAGAGTTCTTCAAACGAAGCTGTTAAGTCTGATCTGATCCCAGAGGCCTCTGTGTCAGACATATCTTGGGATATTAGTGTTGAAACTCCTCAGGTTAATGTGATTGATGATCTCAATTTGTCAAACGTAATAGTGGACAATCAAACATCTCCTCTTGATACTTCAACTCAAACAACTGCAATCAAGGAAGGCAGGAGCCAACTTTTGGAGACGGAGTATAGGAATAAGATTCTTGATGATCTGAATGAGGTCAAAGCCTTTTTAAATCAGCGGTTAGTTGAGTTAAAGAATGAGGATACTTTGTCCTTGCAACATCAAGTCCAGGCAGCTGCTCCCTTTGTGCTGCAACAATATGCTCATGATGCTATTGAGACAATGCTATCTGAAGTTTCCTTGGCTATTTCCCGGCTGACAAATAGGAAGACACGGGACTTGATTATGATTCTCAACTCCAAAAGGTTTCTAGACAGATTAGTGAGCTCATTGGAAGAAAAGAAGCACCATGAAGTTAAGATGAAAGAGAGTTTGAATGGCATAGCTGGCAAACGCATGGAACTGCAGAACTCATTATCTTCTTCCTGGCCTAAGCAGGAAGCTGAACTTACAAAAACCCGTGAACTGAAGAAACTGTGTGAAAGCACGCTTTCATCGATGTTTGATGGAAGACCTGTTAATATAATTGGAGAGATCAATACCCTTTTGACTAGCGGCCGTAGTGCATAA

Protein Analysis

248

Amino Acids

27.65

Weight (kDa)

5.17

Isoelectric Point (pI)

43.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CDK5RAP3 PF05600 13 - 235 1.2e-62 CDK5 regulatory subunit-associated protein 3
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 226
AciI CCGC 2 cut(s) 292, 729
AclWI GGATC 1 cut(s) 52
AcoI YGGCCR 1 cut(s) 730
AcuI CTGAAG 2 cut(s) 426, 662
AfiI CCNNNNNNNGG 1 cut(s) 226
AgsI TTSAA 4 cut(s) 33, 104, 186, 550
AjnI CCWGG 2 cut(s) 342, 599
AluBI AGCT 5 cut(s) 41, 350, 501, 560, 617
AluI AGCT 5 cut(s) 41, 350, 501, 560, 617
Alw21I GWGCWC 1 cut(s) 503
Alw26I GTCTC 2 cut(s) 224, 386
AlwI GGATC 1 cut(s) 52
AoxI GGCC 3 cut(s) 66, 602, 730
ApeKI GCWGC 3 cut(s) 347, 350, 364
AsuC2I CCSGG 1 cut(s) 427
AxyI CCTNAGG 1 cut(s) 111
BanII GRGCYC 1 cut(s) 503
BbsI GAAGAC 2 cut(s) 449, 691
Bbv12I GWGCWC 1 cut(s) 503
BbvI GCAGC 3 cut(s) 337, 351, 359
BccI CCATC 1 cut(s) 674
BceAI ACGGC 1 cut(s) 717
BciT130I CCWGG 2 cut(s) 344, 601
BciVI GTATCC 1 cut(s) 310
BcnI CCSGG 1 cut(s) 427
BcoDI GTCTC 2 cut(s) 224, 386
BfaI CTAG 2 cut(s) 485, 726
BfmI CTRYAG 1 cut(s) 578
BfuI GTATCC 1 cut(s) 310
BisI GCNGC 4 cut(s) 348, 351, 365, 730
BlsI GCNGC 4 cut(s) 349, 352, 366, 731
Bme1390I CCNGG 3 cut(s) 344, 427, 601
BmiI GGNNCC 1 cut(s) 218
BmrFI CCNGG 3 cut(s) 344, 427, 601
BmsI GCATC 1 cut(s) 373
BpiI GAAGAC 2 cut(s) 449, 691
Bpu10I CCTNAGC 1 cut(s) 606
BpuMI CCSGG 1 cut(s) 427
Bsa29I ATCGAT 1 cut(s) 671
BsaJI CCNNGG 1 cut(s) 414
BsaXI ACNNNNNCTCC 2 cut(s) 221, 251
Bsc4I CCNNNNNNNGG 1 cut(s) 226
Bse21I CCTNAGG 1 cut(s) 111
BseBI CCWGG 2 cut(s) 344, 601
BseCI ATCGAT 1 cut(s) 671
BseDI CCNNGG 1 cut(s) 414
BseLI CCNNNNNNNGG 1 cut(s) 226
BseMII CTCAG 1 cut(s) 125
BseRI GAGGAG 2 cut(s) 99, 162
BseX3I CGGCCG 1 cut(s) 730
BseXI GCAGC 3 cut(s) 337, 351, 359
BsgI GTGCAG 1 cut(s) 41
Bsh1285I CGRYCG 1 cut(s) 733
BshFI GGCC 3 cut(s) 68, 604, 732
BshVI ATCGAT 1 cut(s) 671
BsiEI CGRYCG 1 cut(s) 733
BsiHKAI GWGCWC 1 cut(s) 503
BsiSI CCGG 1 cut(s) 427
BslFI GGGAC 1 cut(s) 464
BslI CCNNNNNNNGG 1 cut(s) 226
BsmAI GTCTC 2 cut(s) 224, 386
BsmBI CGTCTC 1 cut(s) 224
BsmFI GGGAC 1 cut(s) 464
BsnI GGCC 3 cut(s) 68, 604, 732
Bsp1286I GDGCHC 1 cut(s) 503
Bsp143I GATC 5 cut(s) 52, 57, 130, 259, 708
BspACI CCGC 2 cut(s) 292, 729
BspANI GGCC 3 cut(s) 68, 604, 732
BspCNI CTCAG 1 cut(s) 124
BspDI ATCGAT 1 cut(s) 671
BspHI TCATGA 1 cut(s) 379
BspLI GGNNCC 1 cut(s) 218
BspMAI CTGCAG 1 cut(s) 582
BspPI GGATC 1 cut(s) 52
BssECI CCNNGG 1 cut(s) 414
BssMI GATC 5 cut(s) 52, 57, 130, 259, 708
BssT1I CCWWGG 1 cut(s) 414
Bst2UI CCWGG 2 cut(s) 344, 601
Bst4CI ACNGT 1 cut(s) 651
BstC8I GCNNGC 2 cut(s) 562, 662
BstDEI CTNAG 2 cut(s) 111, 606
BstKTI GATC 5 cut(s) 55, 60, 133, 262, 711
BstMAI GTCTC 2 cut(s) 224, 386
BstMBI GATC 5 cut(s) 52, 57, 130, 259, 708
BstMCI CGRYCG 1 cut(s) 733
BstMWI GCNNNNNNNGC 2 cut(s) 383, 561
BstNI CCWGG 2 cut(s) 344, 601
BstSCI CCNGG 3 cut(s) 342, 425, 599
BstSFI CTRYAG 1 cut(s) 578
BstV1I GCAGC 3 cut(s) 337, 351, 359
BstV2I GAAGAC 2 cut(s) 449, 691
BstZI CGGCCG 1 cut(s) 730
Bsu15I ATCGAT 1 cut(s) 671
Bsu36I CCTNAGG 1 cut(s) 111
BsuI GTATCC 1 cut(s) 310
BsuRI GGCC 3 cut(s) 68, 604, 732
BsuTUI ATCGAT 1 cut(s) 671
Cac8I GCNNGC 2 cut(s) 562, 662
CciI TCATGA 1 cut(s) 379
ClaI ATCGAT 1 cut(s) 671
CviAII CATG 3 cut(s) 380, 524, 571
DdeI CTNAG 2 cut(s) 111, 606
DpnI GATC 5 cut(s) 54, 59, 132, 261, 710
DpnII GATC 5 cut(s) 52, 57, 130, 259, 708
DraI TTTAAA 1 cut(s) 285
EaeI YGGCCR 1 cut(s) 730
EagI CGGCCG 1 cut(s) 730
Ecl136II GAGCTC 1 cut(s) 501
EclXI CGGCCG 1 cut(s) 730
Eco130I CCWWGG 1 cut(s) 414
Eco147I AGGCCT 1 cut(s) 68
Eco24I GRGCYC 1 cut(s) 503
Eco52I CGGCCG 1 cut(s) 730
Eco53kI GAGCTC 1 cut(s) 501
Eco57I CTGAAG 2 cut(s) 426, 662
Eco81I CCTNAGG 1 cut(s) 111
EcoICRI GAGCTC 1 cut(s) 501
EcoRII CCWGG 2 cut(s) 342, 599
EcoT14I CCWWGG 1 cut(s) 414
EcoT38I GRGCYC 1 cut(s) 503
ErhI CCWWGG 1 cut(s) 414
Esp3I CGTCTC 1 cut(s) 224
FaeI CATG 3 cut(s) 383, 527, 574
FalI AAGNNNNNCTT 2 cut(s) 606, 638
FaqI GGGAC 1 cut(s) 464
FatI CATG 3 cut(s) 379, 523, 570
Fnu4HI GCNGC 4 cut(s) 348, 351, 365, 730
FriOI GRGCYC 1 cut(s) 503
Fsp4HI GCNGC 4 cut(s) 348, 351, 365, 730
FspBI CTAG 2 cut(s) 485, 726
GluI GCNGC 4 cut(s) 348, 351, 365, 730
HaeIII GGCC 3 cut(s) 68, 604, 732
HapII CCGG 1 cut(s) 427
Hin1II CATG 3 cut(s) 383, 527, 574
HinfI GANTC 2 cut(s) 250, 463
HpaII CCGG 1 cut(s) 427
Hpy166II GTNNAC 2 cut(s) 157, 638
Hpy188I TCNGA 5 cut(s) 52, 57, 79, 264, 406
Hpy188III TCNNGA 4 cut(s) 176, 254, 380, 485
Hpy8I GTNNAC 2 cut(s) 157, 638
HpyAV CCTTC 1 cut(s) 203
HpyCH4III ACNGT 1 cut(s) 651
HpyCH4IV ACGT 1 cut(s) 147
HpyCH4V TGCA 7 cut(s) 11, 22, 200, 331, 367, 580, 740
HpyF10VI GCNNNNNNNGC 2 cut(s) 383, 561
HpyF3I CTNAG 2 cut(s) 111, 606
HpySE526I ACGT 1 cut(s) 147
Hsp92II CATG 3 cut(s) 383, 527, 574
Kzo9I GATC 5 cut(s) 52, 57, 130, 259, 708
LmnI GCTCC 2 cut(s) 216, 358
Lsp1109I GCAGC 3 cut(s) 337, 351, 359
LweI GCATC 1 cut(s) 373
MaeI CTAG 2 cut(s) 485, 726
MaeII ACGT 1 cut(s) 147
MalI GATC 5 cut(s) 54, 59, 132, 261, 710
MboI GATC 5 cut(s) 52, 57, 130, 259, 708
MboII GAAGA 7 cut(s) 21, 454, 521, 585, 588, 655, 696
MhlI GDGCHC 1 cut(s) 503
MluCI AATT 2 cut(s) 136, 699
MnlI CCTC 7 cut(s) 10, 58, 79, 120, 183, 262, 307
MseI TTAA 7 cut(s) 6, 45, 117, 284, 305, 531, 693
MspA1I CMGCKG 2 cut(s) 292, 350
MspI CCGG 1 cut(s) 427
MspR9I CCNGG 3 cut(s) 344, 427, 601
MvaI CCWGG 2 cut(s) 344, 601
MwoI GCNNNNNNNGC 2 cut(s) 383, 561
NciI CCSGG 1 cut(s) 427
NdeII GATC 5 cut(s) 52, 57, 130, 259, 708
NlaIII CATG 3 cut(s) 383, 527, 574
NlaIV GGNNCC 1 cut(s) 218
PagI TCATGA 1 cut(s) 379
PceI AGGCCT 1 cut(s) 68
PcsI WCGNNNNNNNCGW 1 cut(s) 668
PfeI GAWTC 2 cut(s) 250, 463
PflMI CCANNNNNTGG 1 cut(s) 226
PkrI GCNGC 4 cut(s) 349, 352, 366, 731
Psp124BI GAGCTC 1 cut(s) 503
Psp6I CCWGG 2 cut(s) 342, 599
PspGI CCWGG 2 cut(s) 342, 599
PspN4I GGNNCC 1 cut(s) 218
PstI CTGCAG 1 cut(s) 582
PvuII CAGCTG 1 cut(s) 350
SacI GAGCTC 1 cut(s) 503
SaqAI TTAA 7 cut(s) 6, 45, 117, 284, 305, 531, 693
SatI GCNGC 4 cut(s) 348, 351, 365, 730
Sau3AI GATC 5 cut(s) 52, 57, 130, 259, 708
ScrFI CCNGG 3 cut(s) 344, 427, 601
SduI GDGCHC 1 cut(s) 503
SfaNI GCATC 1 cut(s) 373
SfcI CTRYAG 1 cut(s) 578
Sse9I AATT 2 cut(s) 136, 699
SseBI AGGCCT 1 cut(s) 68
SsiI CCGC 2 cut(s) 292, 729
SspMI CTAG 2 cut(s) 485, 726
SstI GAGCTC 1 cut(s) 503
StuI AGGCCT 1 cut(s) 68
StyD4I CCNGG 3 cut(s) 342, 425, 599
StyI CCWWGG 1 cut(s) 414
TaaI ACNGT 1 cut(s) 651
TaiI ACGT 1 cut(s) 150
TaqI TCGA 1 cut(s) 671
TasI AATT 2 cut(s) 136, 699
TauI GCSGC 1 cut(s) 732
TfiI GAWTC 2 cut(s) 250, 463
Tru1I TTAA 7 cut(s) 6, 45, 117, 284, 305, 531, 693
Tru9I TTAA 7 cut(s) 6, 45, 117, 284, 305, 531, 693
TseI GCWGC 3 cut(s) 347, 350, 364
TspDTI ATGAA 3 cut(s) 540, 551, 657
TspGWI ACGGA 1 cut(s) 248
Van91I CCANNNNNTGG 1 cut(s) 226
XbaI TCTAGA 1 cut(s) 484
XspI CTAG 2 cut(s) 485, 726
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.