MD08G1045500.v1.1

Crooked neck-like protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0019185
Physical Location & Seq
Forward (+)
3452189 .. 3453792
1604 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1045500.v1.1.491

Sequence Viewer

Length: 1137 bp
ATGTGGCTCGTGCTCGGGAAATATTTCGGAGGTGGATGGATTGGATGCCGGAACCAGCAAGGCTGGATCGAATTCATCGAGTTTGAGCTTCGGTATAACGAAGTAGATCACGCGAGAGCGATTTTTGAGCAGTTCGTGCACTGTCATCCAAAAGCTGACGCTTGGATTCGGTATGCCAAGTTTGAGATGAAGAATGGCGACCTTGCAAGGGTAAGGGATGTGTATCAGACGGCAGTGGATATGGTAGACAATGATGAGGAGGCCGAACAGATGTTCGAGGAATTTGAGGAGCGTTATGGGGGACAGACAAGGGATCGAGGATGCAATTGTGAACAAGGCAAGGTTCAAGTACGAGCAGGAGAAGAAAATGCAGGGAACAAGGAGAAGATTAGACAAGTTTATGATCGAGCGATTGCCAATGTACCACCGGCTCAAGAAAAGCGGTATTGGCAGCGCTACATTTATCTATGGATCAACTATGCACTGTATGCGTGGATCAGGTATGCAGAGTTTGAGAAAAAACTTTGCGACACGGAACGAGCCCGATCAGTTTATGAACTTGCCATCAGCCAAAAACAACTCGACAAGCCCGAATTGCTGTGGAAGTCATATATTGACTTCGAACTAGCAGAGAGAGAGTTTGAGAGAGCTAGAGATCTGTACGGGCGACTCTTAGAACGGACCCAACACGTTAAAGTCTGGATCAGTTACGCAGCATTCGAGGCATCGGCTATGGTGGGAGGAGACGGAATGCGCTCAGAAGATGTTATTGAGCAAAAGGAACAATGCATTCAGCGCGCCAGAAGGGTTTTCGAGAGAGCGTCGGAATATTTTAGAACTTCAGCGCCGGAACTTAAGGAACAAAGAACTATGCTGCTAGAACAATGGCTGAACACGGAGGAGGAGTTTGGGGATTTCGGTGATGTTACGTTAGTGCAAGCGAAGCTGCCGCGGAGATTGAAGAGGAAACGGCCAATAGTTATTGAAGATGGCGGTTCTGCTGGGTTTGAAGAATACATTGATTATCTTTTTCCAGAAGAAGCTCTTAACACGAACTGGAAGCTTTTCGAAGCTGCCTACCATTGGAAGAGGCGAAAAGATTCTTCTGCGGAGGATGCGGAAGATAAAGAAACATAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
HAT Suf TPR_8

Protein Analysis

379

Amino Acids

45.01

Weight (kDa)

5.21

Isoelectric Point (pI)

46.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HAT_PRP39_C PF23241 20 - 100 1.8e-08 PRP39 C-terminal HAT repeat
HAT_PRP39_N PF23240 21 - 91 3e-06 PRP39 N-terminal HAT repeat
HAT PF02184 34 - 62 8.7e-10 HAT (Half-A-TPR) repeat
HAT_PRP39_C PF23241 192 - 299 2e-07 PRP39 C-terminal HAT repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0019185)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G51110
malus_domestica MD08G1044800.v1.1 MD08G1045500.v1.1
pyrus_communis pycom08g03610 pycom08g03630 pycom08g03750 pycom08g03760
rosa_samantha Rh5BG087000

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 246
AccII CGCG 3 cut(s) 113, 798, 952
AciI CCGC 6 cut(s) 442, 950, 952, 993, 1109, 1118
AclWI GGATC 5 cut(s) 74, 321, 479, 503, 710
AcoI YGGCCR 1 cut(s) 971
AcsI RAATTY 2 cut(s) 71, 281
AcuI CTGAAG 1 cut(s) 825
AfaI GTAC 3 cut(s) 351, 423, 662
AfeI AGCGCT 1 cut(s) 455
AfiI CCNNNNNNNGG 2 cut(s) 208, 1083
AflII CTTAAG 1 cut(s) 854
AflIII ACRYGT 1 cut(s) 688
AgsI TTSAA 4 cut(s) 347, 961, 986, 1010
AluBI AGCT 7 cut(s) 88, 155, 650, 946, 1043, 1063, 1073
AluI AGCT 7 cut(s) 88, 155, 650, 946, 1043, 1063, 1073
Alw21I GWGCWC 2 cut(s) 15, 141
Alw26I GTCTC 1 cut(s) 738
Alw44I GTGCAC 1 cut(s) 137
AlwI GGATC 5 cut(s) 74, 321, 479, 503, 710
Ama87I CYCGRG 1 cut(s) 14
Aor51HI AGCGCT 1 cut(s) 455
AoxI GGCC 2 cut(s) 261, 971
ApaLI GTGCAC 1 cut(s) 137
ApeKI GCWGC 5 cut(s) 451, 713, 874, 946, 1073
ApoI RAATTY 2 cut(s) 71, 281
Asp700I GAANNNNTTC 3 cut(s) 23, 1064, 1099
AspLEI GCGC 5 cut(s) 456, 756, 798, 800, 847
AspS9I GGNCC 1 cut(s) 681
AsuHPI GGTGA 1 cut(s) 932
AsuII TTCGAA 2 cut(s) 621, 1068
AvaI CYCGRG 1 cut(s) 14
AvaII GGWCC 1 cut(s) 681
BaeGI GKGCMC 1 cut(s) 141
BanII GRGCYC 1 cut(s) 544
BauI CACGAG 1 cut(s) 8
Bbv12I GWGCWC 2 cut(s) 15, 141
BbvI GCAGC 5 cut(s) 463, 725, 861, 933, 1060
BccI CCATC 3 cut(s) 30, 572, 983
BceAI ACGGC 2 cut(s) 246, 986
BcoDI GTCTC 1 cut(s) 738
BfaI CTAG 3 cut(s) 626, 651, 878
BfoI RGCGCY 2 cut(s) 457, 848
BfrI CTTAAG 1 cut(s) 854
BglII AGATCT 1 cut(s) 655
BisI GCNGC 6 cut(s) 452, 714, 875, 947, 950, 1074
BlsI GCNGC 6 cut(s) 453, 715, 876, 948, 951, 1075
Bme18I GGWCC 1 cut(s) 681
BmeT110I CYCGRG 1 cut(s) 14
BmgT120I GGNCC 1 cut(s) 681
BmiI GGNNCC 2 cut(s) 53, 683
BmsI GCATC 4 cut(s) 35, 311, 734, 1105
Bpu14I TTCGAA 2 cut(s) 621, 1068
BpuEI CTTGAG 1 cut(s) 417
BsaBI GATNNNNATC 1 cut(s) 222
BsaJI CCNNGG 1 cut(s) 950
BsaXI ACNNNNNCTCC 2 cut(s) 890, 920
Bsc4I CCNNNNNNNGG 2 cut(s) 208, 1083
Bse118I RCCGGY 1 cut(s) 427
Bse1I ACTGG 1 cut(s) 1061
Bse8I GATNNNNATC 1 cut(s) 222
BseDI CCNNGG 1 cut(s) 950
BseGI GGATG 6 cut(s) 41, 50, 145, 223, 326, 1120
BseJI GATNNNNATC 1 cut(s) 222
BseLI CCNNNNNNNGG 2 cut(s) 208, 1083
BseMII CTCAG 1 cut(s) 771
BseNI ACTGG 1 cut(s) 1061
BsePI GCGCGC 1 cut(s) 796
BseRI GAGGAG 5 cut(s) 272, 302, 756, 914, 917
BseSI GKGCMC 1 cut(s) 141
BseXI GCAGC 5 cut(s) 463, 725, 861, 933, 1060
BseYI CCCAGC 1 cut(s) 1001
Bsh1236I CGCG 3 cut(s) 113, 798, 952
BshFI GGCC 2 cut(s) 263, 973
BsiHKAI GWGCWC 2 cut(s) 15, 141
BsiHKCI CYCGRG 1 cut(s) 14
BsiSI CCGG 3 cut(s) 49, 428, 848
BslFI GGGAC 1 cut(s) 315
BslI CCNNNNNNNGG 2 cut(s) 208, 1083
BsmAI GTCTC 1 cut(s) 738
BsmBI CGTCTC 1 cut(s) 738
BsmFI GGGAC 1 cut(s) 315
BsmI GAATGC 3 cut(s) 716, 756, 789
BsnI GGCC 2 cut(s) 263, 973
BsoBI CYCGRG 1 cut(s) 14
Bsp119I TTCGAA 2 cut(s) 621, 1068
Bsp1286I GDGCHC 3 cut(s) 15, 141, 544
Bsp143I GATC 9 cut(s) 66, 106, 313, 403, 471, 495, 545, 655, 702
BspACI CCGC 6 cut(s) 442, 950, 952, 993, 1109, 1118
BspANI GGCC 2 cut(s) 263, 973
BspCNI CTCAG 1 cut(s) 770
BspFNI CGCG 3 cut(s) 113, 798, 952
BspLI GGNNCC 2 cut(s) 53, 683
BspPI GGATC 5 cut(s) 74, 321, 479, 503, 710
BspT104I TTCGAA 2 cut(s) 621, 1068
BspTI CTTAAG 1 cut(s) 854
BsrFI RCCGGY 1 cut(s) 427
BsrI ACTGG 1 cut(s) 1061
BssAI RCCGGY 1 cut(s) 427
BssECI CCNNGG 1 cut(s) 950
BssHII GCGCGC 1 cut(s) 796
BssMI GATC 9 cut(s) 66, 106, 313, 403, 471, 495, 545, 655, 702
BssSI CACGAG 1 cut(s) 8
Bst2BI CACGAG 1 cut(s) 8
Bst4CI ACNGT 2 cut(s) 143, 486
Bst6I CTCTTC 2 cut(s) 956, 1082
BstAFI CTTAAG 1 cut(s) 854
BstAPI GCANNNNNTGC 2 cut(s) 136, 488
BstBI TTCGAA 2 cut(s) 621, 1068
BstC8I GCNNGC 2 cut(s) 798, 939
BstDEI CTNAG 2 cut(s) 673, 757
BstDSI CCRYGG 1 cut(s) 950
BstF5I GGATG 6 cut(s) 41, 50, 145, 223, 326, 1120
BstFNI CGCG 3 cut(s) 113, 798, 952
BstH2I RGCGCY 2 cut(s) 457, 848
BstHHI GCGC 5 cut(s) 456, 756, 798, 800, 847
BstKTI GATC 9 cut(s) 69, 109, 316, 406, 474, 498, 548, 658, 705
BstMAI GTCTC 1 cut(s) 738
BstMBI GATC 9 cut(s) 66, 106, 313, 403, 471, 495, 545, 655, 702
BstMWI GCNNNNNNNGC 8 cut(s) 136, 448, 488, 595, 722, 795, 943, 1115
BstSLI GKGCMC 1 cut(s) 141
BstUI CGCG 3 cut(s) 113, 798, 952
BstV1I GCAGC 5 cut(s) 463, 725, 861, 933, 1060
BstX2I RGATCY 1 cut(s) 655
BstYI RGATCY 1 cut(s) 655
BsuRI GGCC 2 cut(s) 263, 973
BtgI CCRYGG 1 cut(s) 950
BtsCI GGATG 6 cut(s) 41, 50, 145, 223, 326, 1120
BtsI GCAGTG 1 cut(s) 240
BtsIMutI CAGTG 3 cut(s) 139, 240, 482
Cac8I GCNNGC 2 cut(s) 798, 939
CfoI GCGC 5 cut(s) 456, 756, 798, 800, 847
Cfr10I RCCGGY 1 cut(s) 427
Cfr13I GGNCC 1 cut(s) 681
Cfr42I CCGCGG 1 cut(s) 953
CseI GACGC 2 cut(s) 167, 810
Csp6I GTAC 3 cut(s) 350, 422, 661
CviQI GTAC 3 cut(s) 350, 422, 661
DdeI CTNAG 2 cut(s) 673, 757
DpnI GATC 9 cut(s) 68, 108, 315, 405, 473, 497, 547, 657, 704
DpnII GATC 9 cut(s) 66, 106, 313, 403, 471, 495, 545, 655, 702
EaeI YGGCCR 1 cut(s) 971
Eam1104I CTCTTC 2 cut(s) 956, 1082
EarI CTCTTC 2 cut(s) 956, 1082
Eco24I GRGCYC 1 cut(s) 544
Eco47I GGWCC 1 cut(s) 681
Eco47III AGCGCT 1 cut(s) 455
Eco57I CTGAAG 1 cut(s) 825
Eco88I CYCGRG 1 cut(s) 14
EcoRI GAATTC 1 cut(s) 71
EcoT22I ATGCAT 1 cut(s) 791
EcoT38I GRGCYC 1 cut(s) 544
Esp3I CGTCTC 1 cut(s) 738
FalI AAGNNNNNCTT 2 cut(s) 1029, 1061
FaqI GGGAC 1 cut(s) 315
FblI GTMKAC 1 cut(s) 246
Fnu4HI GCNGC 6 cut(s) 452, 714, 875, 947, 950, 1074
FokI GGATG 6 cut(s) 48, 57, 132, 230, 333, 1127
FriOI GRGCYC 1 cut(s) 544
Fsp4HI GCNGC 6 cut(s) 452, 714, 875, 947, 950, 1074
FspBI CTAG 3 cut(s) 626, 651, 878
GlaI GCGC 5 cut(s) 455, 755, 797, 799, 846
GluI GCNGC 6 cut(s) 452, 714, 875, 947, 950, 1074
GsaI CCCAGC 1 cut(s) 1005
HaeII RGCGCY 2 cut(s) 457, 848
HaeIII GGCC 2 cut(s) 263, 973
HapII CCGG 3 cut(s) 49, 428, 848
HgaI GACGC 2 cut(s) 167, 810
HhaI GCGC 5 cut(s) 456, 756, 798, 800, 847
Hin6I GCGC 5 cut(s) 454, 754, 796, 798, 845
HinP1I GCGC 5 cut(s) 454, 754, 796, 798, 845
HindIII AAGCTT 1 cut(s) 1061
HinfI GANTC 3 cut(s) 166, 669, 1100
HpaII CCGG 3 cut(s) 49, 428, 848
HphI GGTGA 1 cut(s) 932
Hpy166II GTNNAC 3 cut(s) 139, 247, 332
Hpy188I TCNGA 4 cut(s) 29, 228, 760, 826
Hpy188III TCNNGA 5 cut(s) 16, 434, 700, 814, 1034
Hpy8I GTNNAC 3 cut(s) 139, 247, 332
Hpy99I CGWCG 1 cut(s) 826
HpyAV CCTTC 1 cut(s) 798
HpyCH4III ACNGT 2 cut(s) 143, 486
HpyCH4IV ACGT 2 cut(s) 690, 929
HpyCH4V TGCA 8 cut(s) 139, 206, 324, 371, 482, 506, 789, 937
HpyF10VI GCNNNNNNNGC 8 cut(s) 136, 448, 488, 595, 722, 795, 943, 1115
HpyF3I CTNAG 2 cut(s) 673, 757
HpySE526I ACGT 2 cut(s) 690, 929
HspAI GCGC 5 cut(s) 454, 754, 796, 798, 845
KspI CCGCGG 1 cut(s) 953
Kzo9I GATC 9 cut(s) 66, 106, 313, 403, 471, 495, 545, 655, 702
LmnI GCTCC 1 cut(s) 289
Lsp1109I GCAGC 5 cut(s) 463, 725, 861, 933, 1060
LweI GCATC 4 cut(s) 35, 311, 734, 1105
MaeI CTAG 3 cut(s) 626, 651, 878
MaeII ACGT 2 cut(s) 690, 929
MaeIII GTNAC 2 cut(s) 707, 925
MalI GATC 9 cut(s) 68, 108, 315, 405, 473, 497, 547, 657, 704
MboI GATC 9 cut(s) 66, 106, 313, 403, 471, 495, 545, 655, 702
MfeI CAATTG 1 cut(s) 325
MflI RGATCY 1 cut(s) 655
MhlI GDGCHC 3 cut(s) 15, 141, 544
MluCI AATT 4 cut(s) 71, 281, 325, 593
MlyI GAGTC 1 cut(s) 663
MmeI TCCRAC 1 cut(s) 804
Mph1103I ATGCAT 1 cut(s) 791
MroXI GAANNNNTTC 3 cut(s) 23, 1064, 1099
MseI TTAA 3 cut(s) 693, 855, 1047
MspA1I CMGCKG 1 cut(s) 952
MspCI CTTAAG 1 cut(s) 854
MspI CCGG 3 cut(s) 49, 428, 848
MunI CAATTG 1 cut(s) 325
Mva1269I GAATGC 3 cut(s) 716, 756, 789
MvnI CGCG 3 cut(s) 113, 798, 952
MwoI GCNNNNNNNGC 8 cut(s) 136, 448, 488, 595, 722, 795, 943, 1115
NdeII GATC 9 cut(s) 66, 106, 313, 403, 471, 495, 545, 655, 702
NlaIV GGNNCC 2 cut(s) 53, 683
NsiI ATGCAT 1 cut(s) 791
NspV TTCGAA 2 cut(s) 621, 1068
PauI GCGCGC 1 cut(s) 796
PcsI WCGNNNNNNNCGW 3 cut(s) 75, 588, 717
PctI GAATGC 3 cut(s) 716, 756, 789
PdmI GAANNNNTTC 3 cut(s) 23, 1064, 1099
PfeI GAWTC 2 cut(s) 166, 1100
PkrI GCNGC 6 cut(s) 453, 715, 876, 948, 951, 1075
PleI GAGTC 1 cut(s) 663
PpsI GAGTC 1 cut(s) 663
PspFI CCCAGC 1 cut(s) 1001
PspN4I GGNNCC 2 cut(s) 53, 683
PspPI GGNCC 1 cut(s) 681
PsuI RGATCY 1 cut(s) 655
PteI GCGCGC 1 cut(s) 796
RsaI GTAC 3 cut(s) 351, 423, 662
RsaNI GTAC 3 cut(s) 350, 422, 661
SacII CCGCGG 1 cut(s) 953
SaqAI TTAA 3 cut(s) 693, 855, 1047
SatI GCNGC 6 cut(s) 452, 714, 875, 947, 950, 1074
Sau3AI GATC 9 cut(s) 66, 106, 313, 403, 471, 495, 545, 655, 702
Sau96I GGNCC 1 cut(s) 681
SchI GAGTC 1 cut(s) 663
SduI GDGCHC 3 cut(s) 15, 141, 544
SfaNI GCATC 4 cut(s) 35, 311, 734, 1105
Sfr303I CCGCGG 1 cut(s) 953
SfuI TTCGAA 2 cut(s) 621, 1068
SgrBI CCGCGG 1 cut(s) 953
SinI GGWCC 1 cut(s) 681
SmlI CTYRAG 2 cut(s) 432, 854
SmoI CTYRAG 2 cut(s) 432, 854
Sse9I AATT 4 cut(s) 71, 281, 325, 593
SsiI CCGC 6 cut(s) 442, 950, 952, 993, 1109, 1118
SspI AATATT 2 cut(s) 23, 830
SspMI CTAG 3 cut(s) 626, 651, 878
TaaI ACNGT 2 cut(s) 143, 486
TaiI ACGT 2 cut(s) 693, 932
TasI AATT 4 cut(s) 71, 281, 325, 593
TauI GCSGC 1 cut(s) 952
TfiI GAWTC 2 cut(s) 166, 1100
Tru1I TTAA 3 cut(s) 693, 855, 1047
Tru9I TTAA 3 cut(s) 693, 855, 1047
TscAI CASTG 3 cut(s) 146, 240, 489
TseI GCWGC 5 cut(s) 451, 713, 874, 946, 1073
TspDTI ATGAA 3 cut(s) 64, 203, 570
TspGWI ACGGA 4 cut(s) 548, 694, 762, 911
TspRI CASTG 3 cut(s) 146, 240, 489
Vha464I CTTAAG 1 cut(s) 854
VneI GTGCAC 1 cut(s) 137
VpaK11BI GGWCC 1 cut(s) 681
XapI RAATTY 2 cut(s) 71, 281
XmiI GTMKAC 1 cut(s) 246
XmnI GAANNNNTTC 3 cut(s) 23, 1064, 1099
XspI CTAG 3 cut(s) 626, 651, 878
Zsp2I ATGCAT 1 cut(s) 791
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.