AT3G55340

Zinc knuckle

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0012338
Physical Location & Seq
Forward (+)
20515630 .. 20518059
2430 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G55340.1

Sequence Viewer

Length: 1794 bp
ATGGTGCTGTCGAACAAGAAGCTGAAGCAGAGGATTCGACAAGATTTGGCTGAATCACTATCTGTCTCTGTATCCGAAACAAATCCACAATCTCAGTCTCTGAAATTGCTCCTTGATTCATCTAGCCACAAACCCAGATTGTCGAAGAGAGAGAAACGAAGAAATTGCGAAACTTTCGCTAGAGAAGACGACGAAATCAGAGAGAATGAAGTTGGGAATGGTGGGTCAAGCGAGAAGACTGATACGAAGATTAAAAAGAAGAGAAAGAGAGACGATGCTGTGGAAGTCGACGAGTTAGAAGGAGATGAAGGAACTAAGGAAGAGCAAAAACCCCAGAAGAAGAAAAATAAGAAGAAGAAGAAGAAGAGAAAGGTAAACAAAACGCCAAAGAAGGCTGAGGAAGGCAATGTAGAAGAGAAGGTGAAGGTAGAAGAGATTGAAGTTAATACAGACAATAAAGAAGAAGATGGGGTTGTTCCTAACAAGTTATATGTTGGGGGTATTCCTTATCAGAGTACAGAAGATGAGATTCGTAGCTACTTTAGAAGCTGTGGAGTCATCATTAAAGTTGATTGCAAGATGCGTCCTGAAGATGGGGCTTTCAGTGGTATTGCCTTCATCACTTTTGACACTGAAGATGGCGCAAAACGTGCTTTGGCTTTTGATAGAGCTGCTATGGGTGATCGATATTTGACAATCCAGCAATACGTGAAAACCACCACCCCTTCCATTCCAAGAAGGAAAACATCTTCTGGTTTCGCTCCAGAAATGGTGGATGGCTATAACAGGGTATACATTGGGAATTTAGCCTGGGACACAACAGAGCGTGACATACGGAAGCTCTTCTCTGACTGCGTAATAAACTCTGTGCGGTTGGGTAAAAACAAAGAAACAGGAGAGTTTAAAGGGTATGCGCATGTGGATTTCAAGGATAGTGTGTCTGTGGCGATTGCGCTGAAGCTGGATCAGCAGGTTATTTGCGGAAGACCTGTCAAGATATGTTGTGCACTTAAAGACAGACCAGCTACTGATCATACACCTGGTGAAACGAACAATGCTGGTTCGTACAACATGGAAGATACTTATGCTGCTGCTGATCCAGTACCGGCTTTAGCTGGGCGTAGCGAAGTTGATGACGGAAACTACTTTGCAACTACGGTTAGCAGCAGTAAGGTCAAAAGGAGGGTCTGTTATGAGTGTGGAGAAAAGGGTCATCTTTCTACAGCCTGTCCCATAAAGCTTCAAAAGGCTGATGATCAGGCAAACTCAAAGCTGGGTCAAGAGACTGTTGATGGTAGACCGGCTATGCAAAGCTATGGTCTTCCAAAGAATAGTGGTGATTCTTACTACATGAATGAGACATACGCTTCTACAAATGAAACTTATAATGGAGGATACTCAGCATCTGCTGTTGGCACTGGTAAGGTCAAAAGGAGGAACTGTTATGAGTGTGGAGAAAAGGGTCATCTTTCTACAGCCTGTCCCATAAAGCTTCAAAACACTTCTCACACAAACTCAACGCTGGATCACCAAACTGTTGAGGCAGGACCGACTCAGGTAACAAGCTATAGTCTTCAAAAGAAAACAAGAGACACTGAAAACAATGGTGGTTCGTTCATGGATGAGAGCTATGCTACTGTTCCGATATCCATTGATGTGACAAATGGAGCTAATGATGCAAGCTTAACATCTGCGGTTAGCACTGGTAAGATCAAAAAGAGAAACTGTTACGAGTGCGGAGAAAAAGGTCATCTTTCTTCAGCTTGCCCTAACAAGCTGCAAAAACAAGGCTGA

Protein Analysis

597

Amino Acids

66.0

Weight (kDa)

8.68

Isoelectric Point (pI)

43.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 163 - 230 8.5e-12 RNA recognition motif
RRM_1 PF00076 264 - 331 6.3e-12 RNA recognition motif
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: OG0012338)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G55340
fragaria_vesca FvH4_7g21531
malus_domestica MD01G1122100.v1.1 MD07G1191600.v1.1
prunus_persica Prupe.2G229600_v2.0.a1 Prupe.2G229700_v2.0.a1
pyrus_communis pycom01g14890 pycom07g18100
rosa_chinensis RchiOBHm_Chr1g0365851
rosa_laevigata RLG00000027386
rosa_multiflora Rmu_sc0023137.1_g000001 Rmu_sc0041703.1_g000001
rosa_roxburghii Rroxscaffold_4G00290800
rosa_rugosa Rorug01G0325000
rosa_samantha Rh1AG334000 Rh1BG294600 Rh1CG311300 Rh1DG327000
rosa_wichuraiana Rw1G029630

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1386
Acc16I TGCGCA 1 cut(s) 915
Acc36I ACCTGC 1 cut(s) 961
AccI GTMKAC 3 cut(s) 288, 792, 1297
AciI CCGC 4 cut(s) 871, 981, 1694, 1737
AclWI GGATC 3 cut(s) 972, 1091, 1533
AcsI RAATTY 1 cut(s) 802
AcuI CTGAAG 5 cut(s) 44, 609, 654, 977, 1743
AdeI CACNNNGTG 1 cut(s) 1043
AfaI GTAC 3 cut(s) 517, 1067, 1104
AfiI CCNNNNNNNGG 1 cut(s) 593
AgsI TTSAA 5 cut(s) 440, 928, 1244, 1496, 1577
AjnI CCWGG 2 cut(s) 809, 1039
Alw21I GWGCWC 1 cut(s) 1009
Alw26I GTCTC 6 cut(s) 70, 102, 264, 1277, 1352, 1584
Alw44I GTGCAC 1 cut(s) 1005
AlwI GGATC 3 cut(s) 972, 1091, 1533
AlwNI CAGNNNCTG 3 cut(s) 100, 1028, 1406
ApaLI GTGCAC 1 cut(s) 1005
ApeKI GCWGC 5 cut(s) 671, 1088, 1091, 1164, 1777
ApoI RAATTY 1 cut(s) 802
ArsI GACNNNNNNTTYG 4 cut(s) 1170, 1202, 1303, 1335
Asp700I GAANNNNTTC 1 cut(s) 842
AspLEI GCGC 3 cut(s) 644, 916, 955
AspS9I GGNCC 1 cut(s) 1547
AsuHPI GGTGA 5 cut(s) 433, 692, 1055, 1349, 1520
AvaII GGWCC 1 cut(s) 1547
BaeGI GKGCMC 1 cut(s) 1009
BbsI GAAGAC 5 cut(s) 192, 242, 991, 1313, 1565
Bbv12I GWGCWC 1 cut(s) 1009
BbvCI CCTCAGC 1 cut(s) 396
BbvI GCAGC 5 cut(s) 658, 1075, 1078, 1176, 1764
BccI CCATC 5 cut(s) 461, 587, 632, 770, 1286
BcgI CGANNNNNNTGC 4 cut(s) 17, 51, 147, 181
BciT130I CCWGG 2 cut(s) 811, 1041
BciVI GTATCC 2 cut(s) 82, 1388
BclI TGATCA 2 cut(s) 1030, 1255
BcoDI GTCTC 6 cut(s) 70, 102, 264, 1277, 1352, 1584
BfaI CTAG 2 cut(s) 123, 180
BfmI CTRYAG 3 cut(s) 1221, 1473, 1567
BfuAI ACCTGC 1 cut(s) 961
BfuI GTATCC 2 cut(s) 82, 1388
BisI GCNGC 5 cut(s) 672, 1089, 1092, 1165, 1778
BlsI GCNGC 5 cut(s) 673, 1090, 1093, 1166, 1779
Bme1390I CCNGG 2 cut(s) 811, 1041
Bme18I GGWCC 1 cut(s) 1547
BmgT120I GGNCC 1 cut(s) 1547
BmrFI CCNGG 2 cut(s) 811, 1041
BmsI GCATC 4 cut(s) 265, 570, 1412, 1666
BpiI GAAGAC 5 cut(s) 192, 242, 991, 1313, 1565
BpmI CTGGAG 1 cut(s) 747
Bpu10I CCTNAGC 1 cut(s) 396
Bsa29I ATCGAT 1 cut(s) 685
BsaAI YACGTR 1 cut(s) 709
BsaJI CCNNGG 1 cut(s) 810
BsaXI ACNNNNNCTCC 4 cut(s) 1174, 1204, 1426, 1456
Bsc4I CCNNNNNNNGG 1 cut(s) 593
Bse118I RCCGGY 2 cut(s) 1105, 1300
Bse1I ACTGG 3 cut(s) 1100, 1423, 1708
Bse3DI GCAATG 1 cut(s) 412
BseBI CCWGG 2 cut(s) 811, 1041
BseCI ATCGAT 1 cut(s) 685
BseDI CCNNGG 1 cut(s) 810
BseGI GGATG 2 cut(s) 781, 1627
BseLI CCNNNNNNNGG 1 cut(s) 593
BseMI GCAATG 1 cut(s) 412
BseMII CTCAG 4 cut(s) 107, 387, 1413, 1568
BseNI ACTGG 3 cut(s) 1100, 1423, 1708
BseSI GKGCMC 1 cut(s) 1009
BseXI GCAGC 5 cut(s) 658, 1075, 1078, 1176, 1764
BseYI CCCAGC 2 cut(s) 1115, 1273
BshVI ATCGAT 1 cut(s) 685
BsiHKAI GWGCWC 1 cut(s) 1009
BsiSI CCGG 2 cut(s) 1106, 1301
BslFI GGGAC 3 cut(s) 827, 1215, 1467
BslI CCNNNNNNNGG 1 cut(s) 593
BsmAI GTCTC 6 cut(s) 70, 102, 264, 1277, 1352, 1584
BsmBI CGTCTC 1 cut(s) 264
BsmFI GGGAC 3 cut(s) 827, 1215, 1467
Bsp1286I GDGCHC 1 cut(s) 1009
Bsp143I GATC 7 cut(s) 682, 964, 1030, 1096, 1255, 1525, 1710
BspACI CCGC 4 cut(s) 871, 981, 1694, 1737
BspCNI CTCAG 4 cut(s) 106, 388, 1412, 1567
BspDI ATCGAT 1 cut(s) 685
BspMI ACCTGC 1 cut(s) 961
BspPI GGATC 3 cut(s) 972, 1091, 1533
BspQI GCTCTTC 2 cut(s) 315, 848
BsrDI GCAATG 1 cut(s) 412
BsrFI RCCGGY 2 cut(s) 1105, 1300
BsrI ACTGG 3 cut(s) 1100, 1423, 1708
BssAI RCCGGY 2 cut(s) 1105, 1300
BssECI CCNNGG 1 cut(s) 810
BssMI GATC 7 cut(s) 682, 964, 1030, 1096, 1255, 1525, 1710
BssNAI GTATAC 1 cut(s) 793
Bst1107I GTATAC 1 cut(s) 793
Bst2UI CCWGG 2 cut(s) 811, 1041
Bst4CI ACNGT 6 cut(s) 1159, 1288, 1442, 1537, 1639, 1727
Bst6I CTCTTC 7 cut(s) 140, 254, 315, 359, 408, 426, 848
BstAPI GCANNNNNTGC 1 cut(s) 650
BstBAI YACGTR 1 cut(s) 709
BstC8I GCNNGC 2 cut(s) 1681, 1765
BstDEI CTNAG 5 cut(s) 93, 315, 396, 1399, 1554
BstF5I GGATG 2 cut(s) 781, 1627
BstHHI GCGC 3 cut(s) 644, 916, 955
BstKTI GATC 7 cut(s) 685, 967, 1033, 1099, 1258, 1528, 1713
BstMAI GTCTC 6 cut(s) 70, 102, 264, 1277, 1352, 1584
BstMBI GATC 7 cut(s) 682, 964, 1030, 1096, 1255, 1525, 1710
BstMWI GCNNNNNNNGC 3 cut(s) 650, 967, 1676
BstNI CCWGG 2 cut(s) 811, 1041
BstNSI RCATGY 1 cut(s) 920
BstSCI CCNGG 2 cut(s) 809, 1039
BstSFI CTRYAG 3 cut(s) 1221, 1473, 1567
BstSLI GKGCMC 1 cut(s) 1009
BstV1I GCAGC 5 cut(s) 658, 1075, 1078, 1176, 1764
BstV2I GAAGAC 5 cut(s) 192, 242, 991, 1313, 1565
BstZ17I GTATAC 1 cut(s) 793
Bsu15I ATCGAT 1 cut(s) 685
BsuI GTATCC 2 cut(s) 82, 1388
BsuTUI ATCGAT 1 cut(s) 685
BtsCI GGATG 2 cut(s) 781, 1627
BtsIMutI CAGTG 5 cut(s) 610, 630, 1416, 1593, 1701
BveI ACCTGC 1 cut(s) 961
Cac8I GCNNGC 2 cut(s) 1681, 1765
CaiI CAGNNNCTG 3 cut(s) 100, 1028, 1406
CfoI GCGC 3 cut(s) 644, 916, 955
Cfr10I RCCGGY 2 cut(s) 1105, 1300
Cfr13I GGNCC 1 cut(s) 1547
ClaI ATCGAT 1 cut(s) 685
CseI GACGC 1 cut(s) 572
CsiI ACCWGGT 1 cut(s) 1039
Csp6I GTAC 3 cut(s) 516, 1066, 1103
CviAII CATG 4 cut(s) 917, 1072, 1351, 1618
CviQI GTAC 3 cut(s) 516, 1066, 1103
DdeI CTNAG 5 cut(s) 93, 315, 396, 1399, 1554
DpnI GATC 7 cut(s) 684, 966, 1032, 1098, 1257, 1527, 1712
DpnII GATC 7 cut(s) 682, 964, 1030, 1096, 1255, 1525, 1710
DraI TTTAAA 1 cut(s) 904
DraIII CACNNNGTG 1 cut(s) 1043
Eam1104I CTCTTC 7 cut(s) 140, 254, 315, 359, 408, 426, 848
EarI CTCTTC 7 cut(s) 140, 254, 315, 359, 408, 426, 848
Eco32I GATATC 1 cut(s) 1647
Eco47I GGWCC 1 cut(s) 1547
Eco57I CTGAAG 5 cut(s) 44, 609, 654, 977, 1743
EcoRII CCWGG 2 cut(s) 809, 1039
EcoRV GATATC 1 cut(s) 1647
Esp3I CGTCTC 1 cut(s) 264
FaeI CATG 4 cut(s) 920, 1075, 1354, 1621
FalI AAGNNNNNCTT 2 cut(s) 1737, 1769
FaqI GGGAC 3 cut(s) 827, 1215, 1467
FatI CATG 4 cut(s) 916, 1071, 1350, 1617
FbaI TGATCA 2 cut(s) 1030, 1255
FblI GTMKAC 3 cut(s) 288, 792, 1297
Fnu4HI GCNGC 5 cut(s) 672, 1089, 1092, 1165, 1778
FokI GGATG 2 cut(s) 788, 1634
Fsp4HI GCNGC 5 cut(s) 672, 1089, 1092, 1165, 1778
FspAI RTGCGCAY 1 cut(s) 915
FspBI CTAG 2 cut(s) 123, 180
FspI TGCGCA 1 cut(s) 915
GlaI GCGC 3 cut(s) 643, 915, 954
GluI GCNGC 5 cut(s) 672, 1089, 1092, 1165, 1778
GsaI CCCAGC 2 cut(s) 1119, 1277
GsuI CTGGAG 1 cut(s) 747
HapII CCGG 2 cut(s) 1106, 1301
HgaI GACGC 1 cut(s) 572
HhaI GCGC 3 cut(s) 644, 916, 955
Hin1II CATG 4 cut(s) 920, 1075, 1354, 1621
Hin6I GCGC 3 cut(s) 642, 914, 953
HinP1I GCGC 3 cut(s) 642, 914, 953
HincII GTYRAC 1 cut(s) 289
HindII GTYRAC 1 cut(s) 289
HindIII AAGCTT 3 cut(s) 1238, 1490, 1681
HinfI GANTC 7 cut(s) 34, 53, 116, 529, 555, 1340, 1552
HpaII CCGG 2 cut(s) 1106, 1301
HphI GGTGA 5 cut(s) 433, 692, 1055, 1349, 1520
Hpy166II GTNNAC 5 cut(s) 289, 376, 793, 1007, 1298
Hpy188I TCNGA 6 cut(s) 76, 102, 200, 513, 850, 1644
Hpy188III TCNNGA 4 cut(s) 587, 764, 994, 1280
Hpy8I GTNNAC 5 cut(s) 289, 376, 793, 1007, 1298
Hpy99I CGWCG 2 cut(s) 194, 293
HpyAV CCTTC 9 cut(s) 293, 302, 385, 395, 412, 418, 625, 732, 735
HpyCH4III ACNGT 6 cut(s) 1159, 1288, 1442, 1537, 1639, 1727
HpyCH4IV ACGT 2 cut(s) 649, 708
HpyCH4V TGCA 6 cut(s) 576, 1007, 1151, 1309, 1679, 1780
HpyF10VI GCNNNNNNNGC 3 cut(s) 650, 967, 1676
HpyF3I CTNAG 5 cut(s) 93, 315, 396, 1399, 1554
HpySE526I ACGT 2 cut(s) 649, 708
Hsp92II CATG 4 cut(s) 920, 1075, 1354, 1621
HspAI GCGC 3 cut(s) 642, 914, 953
Ksp22I TGATCA 2 cut(s) 1030, 1255
Kzo9I GATC 7 cut(s) 682, 964, 1030, 1096, 1255, 1525, 1710
LguI GCTCTTC 2 cut(s) 315, 848
LmnI GCTCC 3 cut(s) 114, 766, 1667
Lsp1109I GCAGC 5 cut(s) 658, 1075, 1078, 1176, 1764
LweI GCATC 4 cut(s) 265, 570, 1412, 1666
MabI ACCWGGT 1 cut(s) 1039
MaeI CTAG 2 cut(s) 123, 180
MaeII ACGT 2 cut(s) 649, 708
MaeIII GTNAC 4 cut(s) 827, 1558, 1657, 1727
MalI GATC 7 cut(s) 684, 966, 1032, 1098, 1257, 1527, 1712
MboI GATC 7 cut(s) 682, 964, 1030, 1096, 1255, 1525, 1710
MhlI GDGCHC 1 cut(s) 1009
MluCI AATT 3 cut(s) 104, 163, 802
MlyI GAGTC 2 cut(s) 564, 1546
MnlI CCTC 6 cut(s) 24, 391, 1176, 1385, 1428, 1534
MroXI GAANNNNTTC 1 cut(s) 842
MseI TTAA 6 cut(s) 252, 444, 564, 903, 1011, 1685
MslI CAYNNNNRTG 1 cut(s) 1655
MspI CCGG 2 cut(s) 1106, 1301
MspR9I CCNGG 2 cut(s) 811, 1041
MvaI CCWGG 2 cut(s) 811, 1041
MwoI GCNNNNNNNGC 3 cut(s) 650, 967, 1676
NdeII GATC 7 cut(s) 682, 964, 1030, 1096, 1255, 1525, 1710
NlaIII CATG 4 cut(s) 920, 1075, 1354, 1621
NmuCI GTSAC 2 cut(s) 827, 1657
NsbI TGCGCA 1 cut(s) 915
NspI RCATGY 1 cut(s) 920
PciSI GCTCTTC 2 cut(s) 315, 848
PdmI GAANNNNTTC 1 cut(s) 842
PfeI GAWTC 5 cut(s) 34, 53, 116, 529, 1340
PkrI GCNGC 5 cut(s) 673, 1090, 1093, 1166, 1779
PleI GAGTC 2 cut(s) 563, 1546
PpsI GAGTC 2 cut(s) 563, 1546
Ppu21I YACGTR 1 cut(s) 709
PsiI TTATAA 1 cut(s) 1386
Psp6I CCWGG 2 cut(s) 809, 1039
PspFI CCCAGC 2 cut(s) 1115, 1273
PspGI CCWGG 2 cut(s) 809, 1039
PspPI GGNCC 1 cut(s) 1547
PstNI CAGNNNCTG 3 cut(s) 100, 1028, 1406
RsaI GTAC 3 cut(s) 517, 1067, 1104
RsaNI GTAC 3 cut(s) 516, 1066, 1103
RseI CAYNNNNRTG 1 cut(s) 1655
SalI GTCGAC 1 cut(s) 287
SapI GCTCTTC 2 cut(s) 315, 848
SaqAI TTAA 6 cut(s) 252, 444, 564, 903, 1011, 1685
SatI GCNGC 5 cut(s) 672, 1089, 1092, 1165, 1778
Sau3AI GATC 7 cut(s) 682, 964, 1030, 1096, 1255, 1525, 1710
Sau96I GGNCC 1 cut(s) 1547
SchI GAGTC 2 cut(s) 564, 1546
ScrFI CCNGG 2 cut(s) 811, 1041
SduI GDGCHC 1 cut(s) 1009
SexAI ACCWGGT 1 cut(s) 1039
SfaNI GCATC 4 cut(s) 265, 570, 1412, 1666
SfcI CTRYAG 3 cut(s) 1221, 1473, 1567
SinI GGWCC 1 cut(s) 1547
SmiMI CAYNNNNRTG 1 cut(s) 1655
Sse9I AATT 3 cut(s) 104, 163, 802
SsiI CCGC 4 cut(s) 871, 981, 1694, 1737
SspMI CTAG 2 cut(s) 123, 180
StyD4I CCNGG 2 cut(s) 809, 1039
TaaI ACNGT 6 cut(s) 1159, 1288, 1442, 1537, 1639, 1727
TaiI ACGT 2 cut(s) 652, 711
TaqI TCGA 5 cut(s) 11, 37, 143, 288, 685
TaqII GACCGA 1 cut(s) 1564
TasI AATT 3 cut(s) 104, 163, 802
TatI WGTACW 1 cut(s) 515
TfiI GAWTC 5 cut(s) 34, 53, 116, 529, 1340
Tru1I TTAA 6 cut(s) 252, 444, 564, 903, 1011, 1685
Tru9I TTAA 6 cut(s) 252, 444, 564, 903, 1011, 1685
TscAI CASTG 5 cut(s) 610, 637, 1423, 1600, 1708
TseFI GTSAC 2 cut(s) 827, 1657
TseI GCWGC 5 cut(s) 671, 1088, 1091, 1164, 1777
Tsp45I GTSAC 2 cut(s) 827, 1657
TspDTI ATGAA 7 cut(s) 108, 222, 321, 607, 1367, 1392, 1606
TspGWI ACGGA 2 cut(s) 850, 1152
TspRI CASTG 5 cut(s) 610, 637, 1423, 1600, 1708
VneI GTGCAC 1 cut(s) 1005
VpaK11BI GGWCC 1 cut(s) 1547
XapI RAATTY 1 cut(s) 802
XceI RCATGY 1 cut(s) 920
XmiI GTMKAC 3 cut(s) 288, 792, 1297
XmnI GAANNNNTTC 1 cut(s) 842
XspI CTAG 2 cut(s) 123, 180
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.