MD09G1007500.v1.1

Regulation of nuclear pre-mRNA domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0010397
Physical Location & Seq
Reverse (-)
532165 .. 537988
5824 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1007500.v1.1.491

Sequence Viewer

Length: 1542 bp
ATGGGAAGTACATTCAATCCGCAGATTTTAGTGGAAAAGCTAGCCAAGCTCAATAGCTCTCAAGCAAGCATAGAGACTTTATCACATTGGTGCATTTTCCATATGAATAAAGCAAGACAAGTTGTTGAAACATGGGCTAGGCAATTTCATTCTGCTCCACGCGACCAGAGATTGGCTTTCTTGTATCTTGCTAATGATATTTTACAGAACAGTAGGCGAAAAGGTTCGGAATTTGTTGGTGAATTTTGGAAGGTTCTTCCAGATGCTCTTCGTGATGTAATTGAAAGTGGAGATGAATTTGGAAGAAATGCAGCACAACGATTGGTTAATATATGGGATGATAGAAAAGTTTTTGGTTCTCGTGGCCAGATTCTCAAGCAAGAGTTTGTTGGACAGCACCCGGAAACTAATAACAGAAATGGGAAGCATTCGGGTGCCAGACTGCATCCCGCTGGAACTTCATTGGACAAAATAGTTTCAGATTATCAAGTTATCCATGGGCAGATGGACGAGGATACTATATTGAGCAAATGCAGGAGTGCTATTAGCTGTCTTGAGAAGGTTGATAAGGAAATTGGTGCCGATGTCACTTCAGGGCAATTTCATGGATCTGCATTTGTGGAGGAGGTTCAGGGTCAGCATGCTATACTGAGGAACTGTATTGAACAACTAAGAGCTGTTGAATCATCTAGAGCTAATCTTGTGTCTCATTTGAGAGAGGCTCTTCACGAGCAGGAGTACAAGCTGGATCAAGTCCGAAACCAACTTCAGGGTGCAGAGTCCCAGTCAGAGCTGGCCGCTAATATCTGCCATCGGTTAGTGAATGGGGATAATGCACAGCAGCTAGCAGTCCAGAGCTCAAAGGAAGCTCATACCTCTGTAGCACCTCCCGGTTTTATGGTAGGAAGAGAACAATCAGCTCCGGTAATGTACACACAGCAGGCTCCTTTTGCCGAAAAATCTGGTCGCGTGGAGGAAGATCCTCGCAAGTCTGCAGCTGCTGCAGTGGCAGCAAAGCTGACCGCATCAACATCCTCAGCCCAGATGCTCTCTTATGTCCTCTCCTCTCTGGCATCAGAGGGTGTCATCAGCAATCCAATTAACGAGTCTTCTGGTGATTATCAATCCGAAAAGAGGCTTAAGCTGGAGAATGACCAATCATCGTCCTATGTACCCCAGAGCCCTAACCCGTCTGCATCTCCTCCCTTCTCGCGTTCTGATTCTCTCCCGCACAATGTCTCTACCACCAACCAACAATACACTCCCAATGAGGCACCACCTCCCCCATCATCTTCTCCTCCACCATTGCCACCATTACCACCGCAACCACAGTACCAAGTGCCCCAATATGTGCCGTCTCCTGGACAATACACCTACAACGTGGCCCAACAACCACCACCCCCAATGCCTAGTTATCAAGCAGGAGCTCCAGTAAATGGCATTTCTCCGTTCATGGCACCGACAAACACTTATCAGAGTTTTCAAGGTTCAGACGGTAAATTCTACAACCAGCAACCACCGATGCAGATTTCTAGGCAATAA
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
CTD_bind

Protein Analysis

514

Amino Acids

56.5

Weight (kDa)

6.29

Isoelectric Point (pI)

60.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CID PF04818 9 - 120 2.6e-36 CID domain
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 4 cut(s) 434, 578, 1273, 1456
AccB7I CCANNNNNTGG 2 cut(s) 172, 1436
AccII CGCG 3 cut(s) 162, 969, 1213
AciI CCGC 6 cut(s) 20, 450, 798, 1023, 1229, 1322
AclWI GGATC 3 cut(s) 616, 756, 974
AcoI YGGCCR 2 cut(s) 364, 795
AcsI RAATTY 4 cut(s) 230, 242, 296, 1499
AcuI CTGAAG 2 cut(s) 576, 752
AfaI GTAC 5 cut(s) 10, 740, 932, 1173, 1334
AfiI CCNNNNNNNGG 5 cut(s) 172, 769, 1134, 1361, 1436
AflII CTTAAG 1 cut(s) 1139
AgsI TTSAA 6 cut(s) 16, 128, 284, 665, 683, 1484
AjnI CCWGG 1 cut(s) 1360
AleI CACNNNNGTG 1 cut(s) 88
Alw21I GWGCWC 2 cut(s) 860, 1429
Alw26I GTCTC 4 cut(s) 68, 711, 1243, 1362
AlwI GGATC 3 cut(s) 616, 756, 974
AlwNI CAGNNNCTG 1 cut(s) 1001
AoxI GGCC 3 cut(s) 364, 795, 1383
ApeKI GCWGC 6 cut(s) 311, 841, 995, 998, 1001, 1010
ApoI RAATTY 4 cut(s) 230, 242, 296, 1499
Asp700I GAANNNNTTC 1 cut(s) 223
AspS9I GGNCC 1 cut(s) 1384
AsuC2I CCSGG 2 cut(s) 401, 891
AsuHPI GGTGA 2 cut(s) 251, 1127
AsuNHI GCTAGC 2 cut(s) 40, 844
BaeGI GKGCMC 1 cut(s) 1344
BaeI ACNNNNGTAYC 2 cut(s) 1316, 1349
BalI TGGCCA 1 cut(s) 366
BanI GGYRCC 4 cut(s) 434, 578, 1273, 1456
BanII GRGCYC 3 cut(s) 860, 1184, 1429
BauI CACGAG 2 cut(s) 360, 728
BbsI GAAGAC 1 cut(s) 1101
Bbv12I GWGCWC 2 cut(s) 860, 1429
BbvCI CCTCAGC 1 cut(s) 1036
BbvI GCAGC 6 cut(s) 323, 853, 985, 988, 1007, 1022
BccI CCATC 3 cut(s) 499, 819, 1294
BceAI ACGGC 1 cut(s) 1339
BciT130I CCWGG 1 cut(s) 1362
BciVI GTATCC 1 cut(s) 508
BcnI CCSGG 2 cut(s) 401, 891
BcoDI GTCTC 4 cut(s) 68, 711, 1243, 1362
BfaI CTAG 6 cut(s) 41, 138, 690, 845, 1410, 1533
BfmI CTRYAG 3 cut(s) 879, 993, 1002
BfrI CTTAAG 1 cut(s) 1139
BfuI GTATCC 1 cut(s) 508
BisI GCNGC 7 cut(s) 312, 798, 842, 996, 999, 1002, 1011
BlsI GCNGC 7 cut(s) 313, 799, 843, 997, 1000, 1003, 1012
Bme1390I CCNGG 3 cut(s) 401, 891, 1362
BmgT120I GGNCC 1 cut(s) 1384
BmiI GGNNCC 5 cut(s) 436, 580, 945, 1275, 1458
BmrFI CCNGG 3 cut(s) 401, 891, 1362
BmrI ACTGGG 1 cut(s) 778
BmsI GCATC 7 cut(s) 253, 454, 1034, 1035, 1082, 1205, 1512
BmtI GCTAGC 2 cut(s) 44, 848
BmuI ACTGGG 1 cut(s) 778
BpiI GAAGAC 1 cut(s) 1101
BplI GAGNNNNNCTC 2 cut(s) 706, 738
BpmI CTGGAG 2 cut(s) 1166, 1413
Bpu10I CCTNAGC 1 cut(s) 1036
BpuEI CTTGAG 3 cut(s) 45, 359, 575
BpuMI CCSGG 2 cut(s) 401, 891
BsaJI CCNNGG 1 cut(s) 496
BsaWI WCCGGW 1 cut(s) 922
BsaXI ACNNNNNCTCC 2 cut(s) 1416, 1446
Bsc4I CCNNNNNNNGG 5 cut(s) 172, 769, 1134, 1361, 1436
Bse1I ACTGG 2 cut(s) 784, 1430
Bse3DI GCAATG 1 cut(s) 1304
BseBI CCWGG 1 cut(s) 1362
BseDI CCNNGG 1 cut(s) 496
BseGI GGATG 3 cut(s) 343, 445, 1031
BseLI CCNNNNNNNGG 5 cut(s) 172, 769, 1134, 1361, 1436
BseMI GCAATG 1 cut(s) 1304
BseMII CTCAG 2 cut(s) 641, 1050
BseNI ACTGG 2 cut(s) 784, 1430
BseRI GAGGAG 4 cut(s) 638, 1054, 1191, 1287
BseSI GKGCMC 1 cut(s) 1344
BseXI GCAGC 6 cut(s) 323, 853, 985, 988, 1007, 1022
BsgI GTGCAG 1 cut(s) 795
Bsh1236I CGCG 3 cut(s) 162, 969, 1213
BshFI GGCC 3 cut(s) 366, 797, 1385
BshNI GGYRCC 4 cut(s) 434, 578, 1273, 1456
BsiHKAI GWGCWC 2 cut(s) 860, 1429
BsiSI CCGG 3 cut(s) 401, 891, 923
BslFI GGGAC 1 cut(s) 766
BslI CCNNNNNNNGG 5 cut(s) 172, 769, 1134, 1361, 1436
BsmAI GTCTC 4 cut(s) 68, 711, 1243, 1362
BsmBI CGTCTC 1 cut(s) 1362
BsmFI GGGAC 1 cut(s) 766
BsmI GAATGC 1 cut(s) 427
BsnI GGCC 3 cut(s) 366, 797, 1385
Bsp1286I GDGCHC 4 cut(s) 860, 1184, 1344, 1429
Bsp1407I TGTACA 1 cut(s) 930
Bsp143I GATC 3 cut(s) 608, 748, 979
Bsp19I CCATGG 1 cut(s) 496
BspACI CCGC 6 cut(s) 20, 450, 798, 1023, 1229, 1322
BspANI GGCC 3 cut(s) 366, 797, 1385
BspCNI CTCAG 2 cut(s) 642, 1049
BspFNI CGCG 3 cut(s) 162, 969, 1213
BspLI GGNNCC 5 cut(s) 436, 580, 945, 1275, 1458
BspMAI CTGCAG 2 cut(s) 997, 1006
BspOI GCTAGC 2 cut(s) 44, 848
BspPI GGATC 3 cut(s) 616, 756, 974
BspQI GCTCTTC 2 cut(s) 273, 729
BspT107I GGYRCC 4 cut(s) 434, 578, 1273, 1456
BspTI CTTAAG 1 cut(s) 1139
BsrDI GCAATG 1 cut(s) 1304
BsrGI TGTACA 1 cut(s) 930
BsrI ACTGG 2 cut(s) 784, 1430
BssECI CCNNGG 1 cut(s) 496
BssMI GATC 3 cut(s) 608, 748, 979
BssSI CACGAG 2 cut(s) 360, 728
BssT1I CCWWGG 1 cut(s) 496
Bst2BI CACGAG 2 cut(s) 360, 728
Bst2UI CCWGG 1 cut(s) 1362
Bst4CI ACNGT 4 cut(s) 212, 659, 1332, 1496
Bst6I CTCTTC 3 cut(s) 273, 729, 901
BstAFI CTTAAG 1 cut(s) 1139
BstAPI GCANNNNNTGC 1 cut(s) 1001
BstAUI TGTACA 1 cut(s) 930
BstC8I GCNNGC 6 cut(s) 42, 67, 642, 795, 846, 942
BstDEI CTNAG 3 cut(s) 650, 671, 1036
BstDSI CCRYGG 1 cut(s) 496
BstF5I GGATG 3 cut(s) 343, 445, 1031
BstFNI CGCG 3 cut(s) 162, 969, 1213
BstKTI GATC 3 cut(s) 611, 751, 982
BstMAI GTCTC 4 cut(s) 68, 711, 1243, 1362
BstMBI GATC 3 cut(s) 608, 748, 979
BstMWI GCNNNNNNNGC 5 cut(s) 46, 950, 1001, 1007, 1010
BstNI CCWGG 1 cut(s) 1362
BstNSI RCATGY 1 cut(s) 644
BstSCI CCNGG 3 cut(s) 399, 889, 1360
BstSFI CTRYAG 3 cut(s) 879, 993, 1002
BstSLI GKGCMC 1 cut(s) 1344
BstUI CGCG 3 cut(s) 162, 969, 1213
BstV1I GCAGC 6 cut(s) 323, 853, 985, 988, 1007, 1022
BstV2I GAAGAC 1 cut(s) 1101
BstX2I RGATCY 2 cut(s) 608, 979
BstYI RGATCY 2 cut(s) 608, 979
BsuI GTATCC 1 cut(s) 508
BsuRI GGCC 3 cut(s) 366, 797, 1385
BtgI CCRYGG 1 cut(s) 496
BtsCI GGATG 3 cut(s) 343, 445, 1031
BtsI GCAGTG 1 cut(s) 1011
BtsIMutI CAGTG 1 cut(s) 1011
Cac8I GCNNGC 6 cut(s) 42, 67, 642, 795, 846, 942
CaiI CAGNNNCTG 1 cut(s) 1001
Cfr13I GGNCC 1 cut(s) 1384
Csp6I GTAC 5 cut(s) 9, 739, 931, 1172, 1333
CviAII CATG 5 cut(s) 132, 497, 605, 641, 1453
CviQI GTAC 5 cut(s) 9, 739, 931, 1172, 1333
DdeI CTNAG 3 cut(s) 650, 671, 1036
DpnI GATC 3 cut(s) 610, 750, 981
DpnII GATC 3 cut(s) 608, 748, 979
EaeI YGGCCR 2 cut(s) 364, 795
Eam1104I CTCTTC 3 cut(s) 273, 729, 901
EarI CTCTTC 3 cut(s) 273, 729, 901
Ecl136II GAGCTC 2 cut(s) 858, 1427
Eco130I CCWWGG 1 cut(s) 496
Eco24I GRGCYC 3 cut(s) 860, 1184, 1429
Eco53kI GAGCTC 2 cut(s) 858, 1427
Eco57I CTGAAG 2 cut(s) 576, 752
EcoICRI GAGCTC 2 cut(s) 858, 1427
EcoRII CCWGG 1 cut(s) 1360
EcoT14I CCWWGG 1 cut(s) 496
EcoT38I GRGCYC 3 cut(s) 860, 1184, 1429
ErhI CCWWGG 1 cut(s) 496
Esp3I CGTCTC 1 cut(s) 1362
FaeI CATG 5 cut(s) 135, 500, 608, 644, 1456
FaqI GGGAC 1 cut(s) 766
FatI CATG 5 cut(s) 131, 496, 604, 640, 1452
FauI CCCGC 2 cut(s) 457, 1236
FauNDI CATATG 1 cut(s) 102
Fnu4HI GCNGC 7 cut(s) 312, 798, 842, 996, 999, 1002, 1011
FokI GGATG 3 cut(s) 350, 432, 1018
FriOI GRGCYC 3 cut(s) 860, 1184, 1429
Fsp4HI GCNGC 7 cut(s) 312, 798, 842, 996, 999, 1002, 1011
FspBI CTAG 6 cut(s) 41, 138, 690, 845, 1410, 1533
GluI GCNGC 7 cut(s) 312, 798, 842, 996, 999, 1002, 1011
GsuI CTGGAG 2 cut(s) 1166, 1413
HaeIII GGCC 3 cut(s) 366, 797, 1385
HapII CCGG 3 cut(s) 401, 891, 923
Hin1II CATG 5 cut(s) 135, 500, 608, 644, 1456
HinfI GANTC 5 cut(s) 370, 683, 779, 1106, 1220
HpaII CCGG 3 cut(s) 401, 891, 923
HphI GGTGA 2 cut(s) 251, 1127
Hpy166II GTNNAC 1 cut(s) 933
Hpy188I TCNGA 9 cut(s) 229, 481, 758, 790, 1078, 1129, 1219, 1476, 1492
Hpy188III TCNNGA 6 cut(s) 260, 272, 554, 690, 728, 853
Hpy8I GTNNAC 1 cut(s) 933
HpyAV CCTTC 3 cut(s) 244, 553, 1216
HpyCH4III ACNGT 4 cut(s) 212, 659, 1332, 1496
HpyCH4IV ACGT 1 cut(s) 1380
HpyF10VI GCNNNNNNNGC 5 cut(s) 46, 950, 1001, 1007, 1010
HpyF3I CTNAG 3 cut(s) 650, 671, 1036
HpySE526I ACGT 1 cut(s) 1380
Hsp92II CATG 5 cut(s) 135, 500, 608, 644, 1456
Kzo9I GATC 3 cut(s) 608, 748, 979
LguI GCTCTTC 2 cut(s) 273, 729
LmnI GCTCC 5 cut(s) 160, 925, 949, 1424, 1432
Lsp1109I GCAGC 6 cut(s) 323, 853, 985, 988, 1007, 1022
LweI GCATC 7 cut(s) 253, 454, 1034, 1035, 1082, 1205, 1512
MaeI CTAG 6 cut(s) 41, 138, 690, 845, 1410, 1533
MaeII ACGT 1 cut(s) 1380
MaeIII GTNAC 1 cut(s) 586
MalI GATC 3 cut(s) 610, 750, 981
MboI GATC 3 cut(s) 608, 748, 979
MboII GAAGA 8 cut(s) 248, 260, 315, 716, 918, 989, 1101, 1284
MflI RGATCY 2 cut(s) 608, 979
MhlI GDGCHC 4 cut(s) 860, 1184, 1344, 1429
MlsI TGGCCA 1 cut(s) 366
MluCI AATT 9 cut(s) 143, 230, 242, 279, 296, 573, 599, 1098, 1499
MluNI TGGCCA 1 cut(s) 366
MlyI GAGTC 2 cut(s) 788, 1115
MmeI TCCRAC 1 cut(s) 370
Mox20I TGGCCA 1 cut(s) 366
MroXI GAANNNNTTC 1 cut(s) 223
MscI TGGCCA 1 cut(s) 366
MseI TTAA 3 cut(s) 327, 1101, 1140
MslI CAYNNNNRTG 2 cut(s) 88, 432
Msp20I TGGCCA 1 cut(s) 366
MspA1I CMGCKG 2 cut(s) 452, 998
MspCI CTTAAG 1 cut(s) 1139
MspI CCGG 3 cut(s) 401, 891, 923
MspR9I CCNGG 3 cut(s) 401, 891, 1362
Mva1269I GAATGC 1 cut(s) 427
MvaI CCWGG 1 cut(s) 1362
MvnI CGCG 3 cut(s) 162, 969, 1213
MwoI GCNNNNNNNGC 5 cut(s) 46, 950, 1001, 1007, 1010
NciI CCSGG 2 cut(s) 401, 891
NcoI CCATGG 1 cut(s) 496
NdeI CATATG 1 cut(s) 102
NdeII GATC 3 cut(s) 608, 748, 979
NheI GCTAGC 2 cut(s) 40, 844
NlaIII CATG 5 cut(s) 135, 500, 608, 644, 1456
NlaIV GGNNCC 5 cut(s) 436, 580, 945, 1275, 1458
NmuCI GTSAC 1 cut(s) 586
NspI RCATGY 1 cut(s) 644
OliI CACNNNNGTG 1 cut(s) 88
PaeI GCATGC 1 cut(s) 644
PciSI GCTCTTC 2 cut(s) 273, 729
PctI GAATGC 1 cut(s) 427
PdmI GAANNNNTTC 1 cut(s) 223
PfeI GAWTC 3 cut(s) 370, 683, 1220
PflMI CCANNNNNTGG 2 cut(s) 172, 1436
PfoI TCCNGGA 1 cut(s) 1360
PkrI GCNGC 7 cut(s) 313, 799, 843, 997, 1000, 1003, 1012
PleI GAGTC 2 cut(s) 787, 1114
PpsI GAGTC 2 cut(s) 787, 1114
Psp124BI GAGCTC 2 cut(s) 860, 1429
Psp6I CCWGG 1 cut(s) 1360
PspGI CCWGG 1 cut(s) 1360
PspN4I GGNNCC 5 cut(s) 436, 580, 945, 1275, 1458
PspPI GGNCC 1 cut(s) 1384
PstI CTGCAG 2 cut(s) 997, 1006
PstNI CAGNNNCTG 1 cut(s) 1001
PsuI RGATCY 2 cut(s) 608, 979
PvuII CAGCTG 1 cut(s) 998
RsaI GTAC 5 cut(s) 10, 740, 932, 1173, 1334
RsaNI GTAC 5 cut(s) 9, 739, 931, 1172, 1333
RseI CAYNNNNRTG 2 cut(s) 88, 432
SacI GAGCTC 2 cut(s) 860, 1429
SapI GCTCTTC 2 cut(s) 273, 729
SaqAI TTAA 3 cut(s) 327, 1101, 1140
SatI GCNGC 7 cut(s) 312, 798, 842, 996, 999, 1002, 1011
Sau3AI GATC 3 cut(s) 608, 748, 979
Sau96I GGNCC 1 cut(s) 1384
SchI GAGTC 2 cut(s) 788, 1115
ScrFI CCNGG 3 cut(s) 401, 891, 1362
SduI GDGCHC 4 cut(s) 860, 1184, 1344, 1429
SfaNI GCATC 7 cut(s) 253, 454, 1034, 1035, 1082, 1205, 1512
SfcI CTRYAG 3 cut(s) 879, 993, 1002
SmiMI CAYNNNNRTG 2 cut(s) 88, 432
SmlI CTYRAG 4 cut(s) 60, 374, 554, 1139
SmoI CTYRAG 4 cut(s) 60, 374, 554, 1139
SphI GCATGC 1 cut(s) 644
Sse9I AATT 9 cut(s) 143, 230, 242, 279, 296, 573, 599, 1098, 1499
SsiI CCGC 6 cut(s) 20, 450, 798, 1023, 1229, 1322
SspMI CTAG 6 cut(s) 41, 138, 690, 845, 1410, 1533
SstI GAGCTC 2 cut(s) 860, 1429
StyD4I CCNGG 3 cut(s) 399, 889, 1360
StyI CCWWGG 1 cut(s) 496
TaaI ACNGT 4 cut(s) 212, 659, 1332, 1496
TaiI ACGT 1 cut(s) 1383
TasI AATT 9 cut(s) 143, 230, 242, 279, 296, 573, 599, 1098, 1499
TatI WGTACW 3 cut(s) 8, 738, 930
TauI GCSGC 1 cut(s) 800
TfiI GAWTC 3 cut(s) 370, 683, 1220
Tru1I TTAA 3 cut(s) 327, 1101, 1140
Tru9I TTAA 3 cut(s) 327, 1101, 1140
TscAI CASTG 1 cut(s) 1011
TseFI GTSAC 1 cut(s) 586
TseI GCWGC 6 cut(s) 311, 841, 995, 998, 1001, 1010
Tsp45I GTSAC 1 cut(s) 586
TspDTI ATGAA 6 cut(s) 119, 137, 309, 450, 593, 1441
TspGWI ACGGA 1 cut(s) 1437
TspRI CASTG 1 cut(s) 1011
Van91I CCANNNNNTGG 2 cut(s) 172, 1436
Vha464I CTTAAG 1 cut(s) 1139
XapI RAATTY 4 cut(s) 230, 242, 296, 1499
XbaI TCTAGA 1 cut(s) 689
XceI RCATGY 1 cut(s) 644
XmnI GAANNNNTTC 1 cut(s) 223
XspI CTAG 6 cut(s) 41, 138, 690, 845, 1410, 1533
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.