MD03G1171800.v1.1

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0001189
Physical Location & Seq
Reverse (-)
23368241 .. 23371946
3706 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1171800.v1.1.491

Sequence Viewer

Length: 1980 bp
ATGTGTATATATAAAAACAAAAGGGCCAGCTTCACTCCACTGATCCACTCCTCTCTCTCTCTCTTTCCCCCTCAATCTCTCTCTATAGAACACACATTCAAGTTGTTTGTGTTGTTTTTCTCCATGGATTCTTATGAAGCTACCAAGATTGTTTTCTCAAGGATCCAAAGCTTGGATCCAGAAAATGCCTCAAAAATCATGGGGTACCTTCTGCTGCAAGACCATGGCGACAAGGAGATGATACGCTTGGCATTTGGACCAGAAACTCTCCTGCACAATCTCATCCTCAACGCCAAAACCCAACTCTCCCTTGTTCCCTCCGACAACCCTACTACTACTTATACCACTACTTCTGCTACTTTCACCCCCATCTCTAGGCCTACCCCTTTGTCCCTCTCCTCCTCCTCCTACTCTTCTTCCTCAACCCTTTGGAGCCTCTCCAATTCCGTGAGCCCCTCTGCTGCTTCTTCTCCGTCTTATGCCAATATTCTTACCAAAAACACTAACCCTACTTCTCTCTGTGCTTCTAGTAGCGAAGTTGGTGACAAATATCAGTTTCAGAGCAATCTTTCTTTTCTCAGTGATCCAAAAACTGATGACTTGTTTTATGGATCTGAAGATTTGAATTCTGGGGGTGGATGGAAACCATGTTTGTATTATTCAAGAGGGTTCTGTAAAAACGGCAGCACCTGCCGTTTTCTCCACGGCGGCAGCTCAGTTAATGTTGTTTCTCCAGGCAATGCCAATGTGATTGAACAGTGCCAGGAGATAATCAGATCCAATGCCGCTGCTCAGCAGCAGAAACTGGCTGCAGTGTCACAGTTCATGGCTGGCCGCGGTGGTGATGCTTCCTCTTTCCCATACAACAAGTGCATGGATTTTCTTACGCAACAACAAAATGACTCTCCAAGGTCAGCAGCATCTGCATTGATGATGGCTGATGAAGTTCACAAGTTTGGGAGATACCAACATGATCGAAACGACTTTTCGACTTTAAATTTGGGAGGAAATGCCAATCACAGTTCAAGGCAGATCTACTTGACATTTCCAGCTGATAGTACATTTAGAGAAGAAGATGTCTCTAATTATTTTAGCATTTATGGACCAGTGCAAGATGTGAGGATTCCATACCAGCAAAAGAGGATGTTTGGATTTGTTACATTCGTTTACTCCGAGACTGTGAAGATCATTTTGGCGAAAGGGAATCCTCATTTCGTATGCGATTCTCGGGTGCTTGTGAAGCCTTACAAGGAGAAGGGCAAAATCCCAGACAAGAAGCAACAACACCAACAGTTTGAGAGGGAAGACTACCATCTGTGTAGAAGCCTGTCTGCCATCGATTCGAGAGAGCATTATGATCTCAATCCTGGATCAAGAATGTTTTACAATACACAAGACATGCTTTTGAGAAGGAAATTAGAGGACCAGGCTAAGTTGCAGCAAGCCATTGAAATCCAAGAAAGGAGACTTATGAACCTCCAACTTCTAGGCATCAAACCCAACAATCTTCATCATCAGAATCAGTACTACAACGGTTTATCAGAAGGGTCTCCATTTCCTTCACCCACTTTGTCACATGCATCCAAAAATCAATTCTTCAATTTTTCACCTAGAGGCAATAATGAAGAAGTCCCACAAGAATATGATGAAGCTGAAAAACCGCAGCAGGAGATGAATCCAACTTTTAATCATGGAACTGAAGATAACAATGGCGATGATTTTAGCCTGCATGAAAGTATGGAGCACATTCTCCCTGATAGCCTATTTGCATCTCCAAAGAAATCAGCTGCTGGAGACCAAATAAATGTCTTCTCAACTACTGCTTCTGCACAAGTCAATACCGAAGGCATCACCAGAACCACCACCATTTCTTCTAACAATATTAATAATAATTTACTGCCCACCACTTCTACACCAAATGCAGATTCCCCAAAATCTGTTCTTTCCAAATGTCCAGGTTTTCTTTTGGAATGTAATTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0097159 GO:1901363
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RRM_1 zf-CCCH

Protein Analysis

660

Amino Acids

73.57

Weight (kDa)

6.32

Isoelectric Point (pI)

54.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PABC_AtC3H46 PF23182 42 - 106 3.2e-35 AtC3H46 PABC 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)
AarI CACCTGC 1 cut(s) 698
Acc36I ACCTGC 1 cut(s) 698
Acc65I GGTACC 1 cut(s) 204
AccB1I GGYRCC 1 cut(s) 204
AccB7I CCANNNNNTGG 1 cut(s) 172
AccII CGCG 1 cut(s) 837
AciI CCGC 5 cut(s) 708, 786, 835, 837, 1661
AclWI GGATC 9 cut(s) 37, 157, 170, 170, 183, 578, 619, 771, 1378
AcoI YGGCCR 1 cut(s) 832
AcsI RAATTY 2 cut(s) 625, 997
AcuI CTGAAG 2 cut(s) 636, 1719
AfaI GTAC 3 cut(s) 206, 1060, 1526
AfiI CCNNNNNNNGG 2 cut(s) 172, 375
AgsI TTSAA 7 cut(s) 100, 625, 663, 755, 1026, 1451, 1600
AjnI CCWGG 5 cut(s) 733, 762, 1366, 1425, 1954
AjuI GAANNNNNNNTTGG 8 cut(s) 137, 169, 1175, 1207, 1577, 1609, 1909, 1941
AluBI AGCT 7 cut(s) 30, 140, 171, 714, 1052, 1652, 1787
AluI AGCT 7 cut(s) 30, 140, 171, 714, 1052, 1652, 1787
Alw21I GWGCWC 1 cut(s) 1746
Alw26I GTCTC 5 cut(s) 1084, 1169, 1459, 1554, 1788
AlwI GGATC 9 cut(s) 37, 157, 170, 170, 183, 578, 619, 771, 1378
AlwNI CAGNNNCTG 4 cut(s) 690, 805, 923, 1790
Ama87I CYCGRG 1 cut(s) 1227
AoxI GGCC 3 cut(s) 24, 377, 832
ApoI RAATTY 2 cut(s) 625, 997
ArsI GACNNNNNNTTYG 2 cut(s) 982, 1014
AseI ATTAAT 1 cut(s) 1884
Asp718I GGTACC 1 cut(s) 204
AspS9I GGNCC 4 cut(s) 24, 257, 1103, 1423
AsuHPI GGTGA 6 cut(s) 355, 554, 854, 1554, 1599, 1843
AvaI CYCGRG 1 cut(s) 1227
AvaII GGWCC 3 cut(s) 257, 1103, 1423
BamHI GGATCC 2 cut(s) 162, 175
BanI GGYRCC 1 cut(s) 204
BanII GRGCYC 1 cut(s) 455
BbsI GAAGAC 2 cut(s) 1311, 1801
Bbv12I GWGCWC 1 cut(s) 1746
BccI CCATC 5 cut(s) 377, 633, 928, 1320, 1343
BceAI ACGGC 3 cut(s) 678, 697, 721
BciT130I CCWGG 5 cut(s) 735, 764, 1368, 1427, 1956
BcoDI GTCTC 5 cut(s) 1084, 1169, 1459, 1554, 1788
BfaI CTAG 4 cut(s) 375, 528, 1487, 1611
BfmI CTRYAG 2 cut(s) 84, 810
BfuAI ACCTGC 1 cut(s) 698
BglII AGATCT 1 cut(s) 1032
BlpI GCTNAGC 1 cut(s) 792
BmcAI AGTACT 1 cut(s) 1526
Bme1390I CCNGG 5 cut(s) 735, 764, 1368, 1427, 1956
Bme18I GGWCC 3 cut(s) 257, 1103, 1423
BmeT110I CYCGRG 1 cut(s) 1227
BmgT120I GGNCC 4 cut(s) 24, 257, 1103, 1423
BmiI GGNNCC 4 cut(s) 164, 177, 206, 434
BmrFI CCNGG 5 cut(s) 735, 764, 1368, 1427, 1956
BmsI GCATC 6 cut(s) 835, 929, 1500, 1589, 1778, 1857
BpiI GAAGAC 2 cut(s) 1311, 1801
BpmI CTGGAG 2 cut(s) 717, 1812
Bpu1102I GCTNAGC 1 cut(s) 792
BpuEI CTTGAG 1 cut(s) 142
Bsa29I ATCGAT 1 cut(s) 1338
BsaBI GATNNNNATC 1 cut(s) 1362
BsaI GGTCTC 2 cut(s) 1554, 1788
BsaJI CCNNGG 5 cut(s) 123, 223, 703, 835, 908
Bsc4I CCNNNNNNNGG 2 cut(s) 172, 375
Bse1I ACTGG 2 cut(s) 810, 1106
Bse3DI GCAATG 1 cut(s) 745
Bse8I GATNNNNATC 1 cut(s) 1362
BseBI CCWGG 5 cut(s) 735, 764, 1368, 1427, 1956
BseCI ATCGAT 1 cut(s) 1338
BseDI CCNNGG 5 cut(s) 123, 223, 703, 835, 908
BseGI GGATG 4 cut(s) 282, 644, 1149, 1580
BseJI GATNNNNATC 1 cut(s) 1362
BseLI CCNNNNNNNGG 2 cut(s) 172, 375
BseMI GCAATG 1 cut(s) 745
BseMII CTCAG 3 cut(s) 592, 729, 806
BseNI ACTGG 2 cut(s) 810, 1106
BseRI GAGGAG 4 cut(s) 40, 388, 391, 394
BsgI GTGCAG 2 cut(s) 257, 1812
Bsh1236I CGCG 1 cut(s) 837
BshFI GGCC 3 cut(s) 26, 379, 834
BshNI GGYRCC 1 cut(s) 204
BshVI ATCGAT 1 cut(s) 1338
BsiHKAI GWGCWC 1 cut(s) 1746
BsiHKCI CYCGRG 1 cut(s) 1227
BslFI GGGAC 2 cut(s) 376, 1616
BslI CCNNNNNNNGG 2 cut(s) 172, 375
BsmAI GTCTC 5 cut(s) 1084, 1169, 1459, 1554, 1788
BsmFI GGGAC 2 cut(s) 376, 1616
BsnI GGCC 3 cut(s) 26, 379, 834
Bso31I GGTCTC 2 cut(s) 1554, 1788
BsoBI CYCGRG 1 cut(s) 1227
Bsp1286I GDGCHC 2 cut(s) 455, 1746
Bsp1720I GCTNAGC 1 cut(s) 792
Bsp19I CCATGG 2 cut(s) 123, 223
BspACI CCGC 5 cut(s) 708, 786, 835, 837, 1661
BspANI GGCC 3 cut(s) 26, 379, 834
BspCNI CTCAG 3 cut(s) 591, 728, 805
BspDI ATCGAT 1 cut(s) 1338
BspFNI CGCG 1 cut(s) 837
BspLI GGNNCC 4 cut(s) 164, 177, 206, 434
BspMAI CTGCAG 1 cut(s) 814
BspMI ACCTGC 1 cut(s) 698
BspPI GGATC 9 cut(s) 37, 157, 170, 170, 183, 578, 619, 771, 1378
BspT107I GGYRCC 1 cut(s) 204
BspTNI GGTCTC 2 cut(s) 1554, 1788
BsrDI GCAATG 1 cut(s) 745
BsrI ACTGG 2 cut(s) 810, 1106
BssECI CCNNGG 5 cut(s) 123, 223, 703, 835, 908
BssT1I CCWWGG 3 cut(s) 123, 223, 908
Bst2UI CCWGG 5 cut(s) 735, 764, 1368, 1427, 1956
Bst4CI ACNGT 6 cut(s) 759, 822, 1022, 1180, 1293, 1535
Bst6I CTCTTC 1 cut(s) 418
BstAPI GCANNNNNTGC 2 cut(s) 690, 923
BstC8I GCNNGC 4 cut(s) 28, 832, 1443, 1727
BstDEI CTNAG 4 cut(s) 578, 715, 792, 1431
BstDSI CCRYGG 4 cut(s) 123, 223, 703, 835
BstF5I GGATG 4 cut(s) 282, 644, 1149, 1580
BstFNI CGCG 1 cut(s) 837
BstMAI GTCTC 5 cut(s) 1084, 1169, 1459, 1554, 1788
BstMWI GCNNNNNNNGC 3 cut(s) 690, 923, 1240
BstNI CCWGG 5 cut(s) 735, 764, 1368, 1427, 1956
BstNSI RCATGY 2 cut(s) 1402, 1580
BstSCI CCNGG 5 cut(s) 733, 762, 1366, 1425, 1954
BstSFI CTRYAG 2 cut(s) 84, 810
BstUI CGCG 1 cut(s) 837
BstV2I GAAGAC 2 cut(s) 1311, 1801
BstX2I RGATCY 5 cut(s) 162, 175, 611, 776, 1032
BstYI RGATCY 5 cut(s) 162, 175, 611, 776, 1032
Bsu15I ATCGAT 1 cut(s) 1338
BsuRI GGCC 3 cut(s) 26, 379, 834
BsuTUI ATCGAT 1 cut(s) 1338
BtgI CCRYGG 4 cut(s) 123, 223, 703, 835
BtgZI GCGATG 1 cut(s) 1728
BtsCI GGATG 4 cut(s) 282, 644, 1149, 1580
BtsI GCAGTG 1 cut(s) 819
BtsIMutI CAGTG 5 cut(s) 38, 586, 764, 819, 1113
BveI ACCTGC 1 cut(s) 698
Cac8I GCNNGC 4 cut(s) 28, 832, 1443, 1727
CaiI CAGNNNCTG 4 cut(s) 690, 805, 923, 1790
Cfr13I GGNCC 4 cut(s) 24, 257, 1103, 1423
Cfr42I CCGCGG 1 cut(s) 838
ClaI ATCGAT 1 cut(s) 1338
Csp6I GTAC 3 cut(s) 205, 1059, 1525
CviQI GTAC 3 cut(s) 205, 1059, 1525
DdeI CTNAG 4 cut(s) 578, 715, 792, 1431
DraI TTTAAA 1 cut(s) 996
EaeI YGGCCR 1 cut(s) 832
Eam1104I CTCTTC 1 cut(s) 418
EarI CTCTTC 1 cut(s) 418
Eco130I CCWWGG 3 cut(s) 123, 223, 908
Eco147I AGGCCT 1 cut(s) 379
Eco24I GRGCYC 1 cut(s) 455
Eco31I GGTCTC 2 cut(s) 1554, 1788
Eco47I GGWCC 3 cut(s) 257, 1103, 1423
Eco57I CTGAAG 2 cut(s) 636, 1719
Eco88I CYCGRG 1 cut(s) 1227
EcoRI GAATTC 1 cut(s) 625
EcoRII CCWGG 5 cut(s) 733, 762, 1366, 1425, 1954
EcoT14I CCWWGG 3 cut(s) 123, 223, 908
EcoT22I ATGCAT 1 cut(s) 1582
EcoT38I GRGCYC 1 cut(s) 455
ErhI CCWWGG 3 cut(s) 123, 223, 908
FalI AAGNNNNNCTT 2 cut(s) 1386, 1418
FaqI GGGAC 2 cut(s) 376, 1616
FokI GGATG 4 cut(s) 269, 651, 1156, 1567
FriOI GRGCYC 1 cut(s) 455
FspBI CTAG 4 cut(s) 375, 528, 1487, 1611
GsuI CTGGAG 2 cut(s) 717, 1812
HaeIII GGCC 3 cut(s) 26, 379, 834
HindIII AAGCTT 1 cut(s) 169
HinfI GANTC 9 cut(s) 128, 902, 1123, 1204, 1223, 1340, 1519, 1675, 1925
HphI GGTGA 6 cut(s) 355, 554, 854, 1554, 1599, 1843
Hpy166II GTNNAC 2 cut(s) 949, 1168
Hpy188I TCNGA 7 cut(s) 322, 561, 616, 776, 1174, 1518, 1543
Hpy188III TCNNGA 4 cut(s) 179, 663, 1344, 1374
Hpy8I GTNNAC 2 cut(s) 949, 1168
HpyAV CCTTC 6 cut(s) 218, 1249, 1404, 1538, 1569, 1838
HpyCH4III ACNGT 6 cut(s) 759, 822, 1022, 1180, 1293, 1535
HpyF10VI GCNNNNNNNGC 3 cut(s) 690, 923, 1240
HpyF3I CTNAG 4 cut(s) 578, 715, 792, 1431
KpnI GGTACC 1 cut(s) 208
KspI CCGCGG 1 cut(s) 838
LmnI GCTCC 2 cut(s) 432, 1741
LweI GCATC 6 cut(s) 835, 929, 1500, 1589, 1778, 1857
MaeI CTAG 4 cut(s) 375, 528, 1487, 1611
MaeIII GTNAC 4 cut(s) 542, 816, 1156, 1572
MflI RGATCY 5 cut(s) 162, 175, 611, 776, 1032
MhlI GDGCHC 2 cut(s) 455, 1746
MluCI AATT 9 cut(s) 442, 625, 997, 1084, 1415, 1592, 1600, 1891, 1975
MlyI GAGTC 1 cut(s) 896
MmeI TCCRAC 3 cut(s) 345, 1504, 1703
Mph1103I ATGCAT 1 cut(s) 1582
MseI TTAA 5 cut(s) 720, 995, 1686, 1884, 1978
MspA1I CMGCKG 4 cut(s) 788, 837, 1052, 1787
MspR9I CCNGG 5 cut(s) 735, 764, 1368, 1427, 1956
MvaI CCWGG 5 cut(s) 735, 764, 1368, 1427, 1956
MvnI CGCG 1 cut(s) 837
MwoI GCNNNNNNNGC 3 cut(s) 690, 923, 1240
NcoI CCATGG 2 cut(s) 123, 223
NlaIV GGNNCC 4 cut(s) 164, 177, 206, 434
NmuCI GTSAC 3 cut(s) 542, 816, 1572
NsiI ATGCAT 1 cut(s) 1582
NspI RCATGY 2 cut(s) 1402, 1580
PaqCI CACCTGC 1 cut(s) 698
PceI AGGCCT 1 cut(s) 379
PcsI WCGNNNNNNNCGW 1 cut(s) 1170
PfeI GAWTC 8 cut(s) 128, 1123, 1204, 1223, 1340, 1519, 1675, 1925
PflMI CCANNNNNTGG 1 cut(s) 172
PfoI TCCNGGA 1 cut(s) 1366
PleI GAGTC 1 cut(s) 896
PpsI GAGTC 1 cut(s) 896
PshBI ATTAAT 1 cut(s) 1884
Psp6I CCWGG 5 cut(s) 733, 762, 1366, 1425, 1954
PspGI CCWGG 5 cut(s) 733, 762, 1366, 1425, 1954
PspN4I GGNNCC 4 cut(s) 164, 177, 206, 434
PspPI GGNCC 4 cut(s) 24, 257, 1103, 1423
PstI CTGCAG 1 cut(s) 814
PstNI CAGNNNCTG 4 cut(s) 690, 805, 923, 1790
PsuI RGATCY 5 cut(s) 162, 175, 611, 776, 1032
PvuII CAGCTG 2 cut(s) 1052, 1787
RsaI GTAC 3 cut(s) 206, 1060, 1526
RsaNI GTAC 3 cut(s) 205, 1059, 1525
SacII CCGCGG 1 cut(s) 838
SaqAI TTAA 5 cut(s) 720, 995, 1686, 1884, 1978
Sau96I GGNCC 4 cut(s) 24, 257, 1103, 1423
ScaI AGTACT 1 cut(s) 1526
SchI GAGTC 1 cut(s) 896
ScrFI CCNGG 5 cut(s) 735, 764, 1368, 1427, 1956
SduI GDGCHC 2 cut(s) 455, 1746
SfaNI GCATC 6 cut(s) 835, 929, 1500, 1589, 1778, 1857
SfcI CTRYAG 2 cut(s) 84, 810
Sfr303I CCGCGG 1 cut(s) 838
SgrBI CCGCGG 1 cut(s) 838
SinI GGWCC 3 cut(s) 257, 1103, 1423
SmlI CTYRAG 1 cut(s) 157
SmoI CTYRAG 1 cut(s) 157
Sse9I AATT 9 cut(s) 442, 625, 997, 1084, 1415, 1592, 1600, 1891, 1975
SseBI AGGCCT 1 cut(s) 379
SsiI CCGC 5 cut(s) 708, 786, 835, 837, 1661
SspI AATATT 2 cut(s) 487, 1882
SspMI CTAG 4 cut(s) 375, 528, 1487, 1611
StuI AGGCCT 1 cut(s) 379
StyD4I CCNGG 5 cut(s) 733, 762, 1366, 1425, 1954
StyI CCWWGG 3 cut(s) 123, 223, 908
TaaI ACNGT 6 cut(s) 759, 822, 1022, 1180, 1293, 1535
TaqI TCGA 4 cut(s) 976, 989, 1338, 1343
TasI AATT 9 cut(s) 442, 625, 997, 1084, 1415, 1592, 1600, 1891, 1975
TatI WGTACW 2 cut(s) 1058, 1524
TauI GCSGC 3 cut(s) 711, 788, 837
TfiI GAWTC 8 cut(s) 128, 1123, 1204, 1223, 1340, 1519, 1675, 1925
Tru1I TTAA 5 cut(s) 720, 995, 1686, 1884, 1978
Tru9I TTAA 5 cut(s) 720, 995, 1686, 1884, 1978
TscAI CASTG 5 cut(s) 45, 586, 764, 819, 1113
TseFI GTSAC 3 cut(s) 542, 816, 1572
Tsp45I GTSAC 3 cut(s) 542, 816, 1572
TspDTI ATGAA 9 cut(s) 150, 814, 957, 1487, 1499, 1638, 1662, 1688, 1746
TspGWI ACGGA 2 cut(s) 436, 462
TspRI CASTG 5 cut(s) 45, 586, 764, 819, 1113
Van91I CCANNNNNTGG 1 cut(s) 172
VpaK11BI GGWCC 3 cut(s) 257, 1103, 1423
VspI ATTAAT 1 cut(s) 1884
XapI RAATTY 2 cut(s) 625, 997
XceI RCATGY 2 cut(s) 1402, 1580
XspI CTAG 4 cut(s) 375, 528, 1487, 1611
ZrmI AGTACT 1 cut(s) 1526
Zsp2I ATGCAT 1 cut(s) 1582
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.