AT5G42340

RING-type E3 ubiquitin transferase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0004467
Physical Location & Seq
Reverse (-)
16927893 .. 16930532
2640 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G42340.1

Sequence Viewer

Length: 1983 bp
ATGGTCGATGTGATGGATACAGATGAAGAAGCCACAGGAGATGCAGAGAACCGTGATGAAGAAGTTACCGCAGAAGAACCGATTCACGATGAGGTTGTGGATGCGGTGGAGATTCATGAGGAAGAAGTGAAAGAAGATGATGATGATTGTGAAGGATTGGTGAGCGATATCGTATCGATTGTCGAGTTTTTGGATCAGATTAACGGTTATCGAAGAACACAACAAAAAGAATGTTTTAATCTCGTTAGACGATTGAAGATTCTTATTCCATTTTTGGATGAGATTCGAGGTTTTGAATCACCAAGTTGCAAGCATTTTTTAAATCGTTTGAGGAAAGTGTTTCTTGCTGCCAAGAAATTATTAGAAACTTGCAGCAATGGCAGTAAAATCTATATGGCATTGGATGGCGAAACAATGATGACGAGATTTCATTCGATTTACGAAAAGTTGAATCGTGTTCTTGTTAAAGCTCCTTTTGATGAATTAATGATTTCTGGTGATGCGAAAGACGAGATTGATTCATTGTGTAAACAACTGAAAAAAGCAAAAAGAAGAACAGATACACAAGACATAGAGCTAGCAGTAGACATGATGGTGGTATTCTCAAAAACCGATCCTCGAAACGCAGATAGCGCGATAATAGAGAGGCTAGCGAAAAAGCTTGAGCTACAAACAATTGATGATTTAAAGACAGAAACTATAGCCATACAAAGCTTAATCCAAGACAAAGGAGGTTTGAACATAGAGACTAAACAACATATCATTGAGCTTCTTAACAAGTTCAAGAAGCTTCAAGGTCTTGAAGCTACCGACATTCTCTACCAACCCGTCATCAATAAAGCAATCACCAAGTCAACGTCTCTAATATTACCTCATGAGTTTTTGTGTCCTATAACACTCGAAATAATGCTTGACCCGGTTATCATCGCCACTGGACAGACATATGAGAAGGAGAGTATACAGAAATGGTTTGACGCAGGACATAAGACTTGTCCTAAAACAAGACAGGAGTTAGATCATCTCTCTCTTGCACCTAACTTCGCTTTAAAGAACTTGATTATGCAGTGGTGTGAGAAGAACAATTTCAAGATTCCAGAGAAAGAAGTAAGTCCTGACTCACAAAATGAGCAGAAAGATGAGGTCTCTTTGCTGGTGGAAGCGTTATCGTCAAGCCAACTGGAAGAACAACGAAGATCAGTGAAGCAGATGCGTTTGCTAGCCAGAGAAAATCCCGAGAACCGCGTTTTAATAGCGAATGCAGGAGCGATTCCTTTGTTAGTTCAACTCCTTTCTTACCCTGATTCAGGAATCCAAGAAAACGCGGTAACGACATTGTTGAATCTATCTATCGACGAGGTCAACAAGAAACTCATTTCAAATGAAGGAGCTATTCCAAACATTATTGAAATCCTTGAAAATGGAAACAGAGAGGCAAGAGAGAACTCTGCTGCAGCTTTGTTTAGTTTATCGATGCTCGATGAGAACAAAGTAACTATCGGATTATCGAATGGGATACCGCCTTTAGTCGATTTACTACAACATGGGACATTAAGAGGGAAGAAAGATGCTCTCACTGCACTCTTTAACTTGTCTCTTAACTCAGCTAATAAAGGAAGAGCTATCGATGCTGGTATTGTTCAACCTTTGCTTAACCTTCTTAAAGATAAAAACTTAGGGATGATCGATGAAGCGCTTTCGATTCTGTTGCTGCTTGCATCACACCCTGAAGGACGTCAAGCCATTGGACAACTCTCCTTCATTGAAACACTTGTGGAATTCATCAGACAAGGCACCCCGAAAAACAAAGAGTGTGCGACCTCGGTGCTGCTTGAACTAGGCTCTAACAACTCGTCTTTTATCCTCGCAGCGCTTCAATTCGGAGTTTATGAATATCTGGTAGAAATAACCACCTCTGGAACAAACAGAGCTCAGAGAAAAGCAAATGCTCTTATACAACTCATAAGCAAATCTGAACAAATTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Arm U-box

Protein Analysis

660

Amino Acids

73.89

Weight (kDa)

5.0

Isoelectric Point (pI)

40.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PUB10_N PF25368 75 - 183 4.6e-24 PUB10-like, N-terminal domain
U-box PF04564 291 - 360 3.3e-21 U-box domain
ARM_ARMC5 PF24768 377 - 557 1.2e-12 ARMC5
ARM_PUB PF25598 380 - 656 1.1e-25 Plant U-box protein ARM repeat region
Arm PF00514 410 - 449 3.2e-11 Armadillo/beta-catenin-like repeat
ARM_ARMC5 PF24768 447 - 603 1.1e-11 ARMC5
Arm PF00514 494 - 531 4.8e-06 Armadillo/beta-catenin-like repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 1735
AccB1I GGYRCC 1 cut(s) 1790
AccI GTMKAC 2 cut(s) 585, 958
AccII CGCG 3 cut(s) 635, 1242, 1322
AciI CCGC 5 cut(s) 69, 104, 1240, 1322, 1517
AclWI GGATC 2 cut(s) 201, 608
AcsI RAATTY 2 cut(s) 1775, 1977
AcuI CTGAAG 1 cut(s) 1746
AcyI GRCGYC 1 cut(s) 1732
AfeI AGCGCT 2 cut(s) 1692, 1869
AfiI CCNNNNNNNGG 1 cut(s) 1304
Alw21I GWGCWC 1 cut(s) 1930
Alw26I GTCTC 4 cut(s) 740, 864, 1147, 1596
AlwI GGATC 2 cut(s) 201, 608
Ama87I CYCGRG 1 cut(s) 1232
Aor51HI AGCGCT 2 cut(s) 1692, 1869
ApeKI GCWGC 7 cut(s) 347, 372, 1448, 1451, 1708, 1825, 1865
ApoI RAATTY 2 cut(s) 1775, 1977
AseI ATTAAT 1 cut(s) 485
Asp700I GAANNNNTTC 2 cut(s) 81, 1082
AspLEI GCGC 3 cut(s) 635, 1693, 1870
AsuC2I CCSGG 1 cut(s) 917
AsuHPI GGTGA 4 cut(s) 172, 291, 509, 838
AsuNHI GCTAGC 3 cut(s) 577, 649, 1216
AvaI CYCGRG 1 cut(s) 1232
BanI GGYRCC 1 cut(s) 1790
BanII GRGCYC 1 cut(s) 1930
BarI GAAGNNNNNNTAC 2 cut(s) 544, 576
Bbv12I GWGCWC 1 cut(s) 1930
BbvI GCAGC 7 cut(s) 334, 384, 1435, 1463, 1695, 1812, 1877
BccI CCATC 3 cut(s) 7, 398, 586
BcgI CGANNNNNNTGC 4 cut(s) 1687, 1721, 1804, 1838
BciVI GTATCC 2 cut(s) 10, 1506
BcnI CCSGG 1 cut(s) 917
BcoDI GTCTC 4 cut(s) 740, 864, 1147, 1596
BfaI CTAG 4 cut(s) 578, 650, 1217, 1835
BfmI CTRYAG 2 cut(s) 699, 1449
BfoI RGCGCY 2 cut(s) 1694, 1871
BfuI GTATCC 2 cut(s) 10, 1506
BisI GCNGC 7 cut(s) 348, 373, 1449, 1452, 1709, 1826, 1866
BlsI GCNGC 7 cut(s) 349, 374, 1450, 1453, 1710, 1827, 1867
Bme1390I CCNGG 1 cut(s) 917
BmeT110I CYCGRG 1 cut(s) 1232
BmiI GGNNCC 1 cut(s) 1792
BmrFI CCNGG 1 cut(s) 917
BmsI GCATC 8 cut(s) 31, 91, 490, 1197, 1461, 1555, 1615, 1724
BmtI GCTAGC 3 cut(s) 581, 653, 1220
BpuEI CTTGAG 1 cut(s) 683
BpuMI CCSGG 1 cut(s) 917
Bsa29I ATCGAT 4 cut(s) 176, 1469, 1623, 1683
BsaHI GRCGYC 1 cut(s) 1732
BsaI GGTCTC 1 cut(s) 1147
BsaJI CCNNGG 1 cut(s) 1818
Bsc4I CCNNNNNNNGG 1 cut(s) 1304
Bse1I ACTGG 2 cut(s) 937, 1182
Bse3DI GCAATG 1 cut(s) 382
BseCI ATCGAT 4 cut(s) 176, 1469, 1623, 1683
BseDI CCNNGG 1 cut(s) 1818
BseGI GGATG 4 cut(s) 106, 283, 409, 1683
BseLI CCNNNNNNNGG 1 cut(s) 1304
BseMI GCAATG 1 cut(s) 382
BseMII CTCAG 2 cut(s) 1614, 1943
BseNI ACTGG 2 cut(s) 937, 1182
BseXI GCAGC 7 cut(s) 334, 384, 1435, 1463, 1695, 1812, 1877
BsgI GTGCAG 1 cut(s) 1560
Bsh1236I CGCG 3 cut(s) 635, 1242, 1322
BshNI GGYRCC 1 cut(s) 1790
BshVI ATCGAT 4 cut(s) 176, 1469, 1623, 1683
BsiHKAI GWGCWC 1 cut(s) 1930
BsiHKCI CYCGRG 1 cut(s) 1232
BsiSI CCGG 1 cut(s) 917
BslFI GGGAC 1 cut(s) 1558
BslI CCNNNNNNNGG 1 cut(s) 1304
BsmAI GTCTC 4 cut(s) 740, 864, 1147, 1596
BsmBI CGTCTC 1 cut(s) 864
BsmFI GGGAC 1 cut(s) 1558
BsmI GAATGC 1 cut(s) 1261
Bso31I GGTCTC 1 cut(s) 1147
BsoBI CYCGRG 1 cut(s) 1232
Bsp1286I GDGCHC 1 cut(s) 1930
Bsp143I GATC 5 cut(s) 193, 613, 1015, 1193, 1680
BspACI CCGC 5 cut(s) 69, 104, 1240, 1322, 1517
BspCNI CTCAG 2 cut(s) 1613, 1942
BspDI ATCGAT 4 cut(s) 176, 1469, 1623, 1683
BspFNI CGCG 3 cut(s) 635, 1242, 1322
BspHI TCATGA 2 cut(s) 115, 874
BspLI GGNNCC 1 cut(s) 1792
BspMAI CTGCAG 1 cut(s) 1453
BspOI GCTAGC 3 cut(s) 581, 653, 1220
BspPI GGATC 2 cut(s) 201, 608
BspQI GCTCTTC 1 cut(s) 1609
BspT107I GGYRCC 1 cut(s) 1790
BspTNI GGTCTC 1 cut(s) 1147
BsrDI GCAATG 1 cut(s) 382
BsrI ACTGG 2 cut(s) 937, 1182
BssECI CCNNGG 1 cut(s) 1818
BssMI GATC 5 cut(s) 193, 613, 1015, 1193, 1680
BssNAI GTATAC 1 cut(s) 959
BssNI GRCGYC 1 cut(s) 1732
Bst1107I GTATAC 1 cut(s) 959
Bst4CI ACNGT 2 cut(s) 53, 206
Bst6I CTCTTC 1 cut(s) 1609
BstACI GRCGYC 1 cut(s) 1732
BstC8I GCNNGC 5 cut(s) 311, 579, 651, 1218, 1713
BstDEI CTNAG 3 cut(s) 1600, 1672, 1929
BstENI CCTNNNNNAGG 1 cut(s) 1302
BstF5I GGATG 4 cut(s) 106, 283, 409, 1683
BstFNI CGCG 3 cut(s) 635, 1242, 1322
BstH2I RGCGCY 2 cut(s) 1694, 1871
BstHHI GCGC 3 cut(s) 635, 1693, 1870
BstKTI GATC 5 cut(s) 196, 616, 1018, 1196, 1683
BstMAI GTCTC 4 cut(s) 740, 864, 1147, 1596
BstMBI GATC 5 cut(s) 193, 613, 1015, 1193, 1680
BstMWI GCNNNNNNNGC 4 cut(s) 378, 632, 1574, 1625
BstSCI CCNGG 1 cut(s) 915
BstSFI CTRYAG 2 cut(s) 699, 1449
BstUI CGCG 3 cut(s) 635, 1242, 1322
BstV1I GCAGC 7 cut(s) 334, 384, 1435, 1463, 1695, 1812, 1877
BstZ17I GTATAC 1 cut(s) 959
Bsu15I ATCGAT 4 cut(s) 176, 1469, 1623, 1683
BsuI GTATCC 2 cut(s) 10, 1506
BsuTUI ATCGAT 4 cut(s) 176, 1469, 1623, 1683
BtgZI GCGATG 1 cut(s) 910
BtsCI GGATG 4 cut(s) 106, 283, 409, 1683
BtsI GCAGTG 2 cut(s) 1070, 1572
BtsIMutI CAGTG 4 cut(s) 930, 1070, 1203, 1572
Cac8I GCNNGC 5 cut(s) 311, 579, 651, 1218, 1713
CciI TCATGA 2 cut(s) 115, 874
CfoI GCGC 3 cut(s) 635, 1693, 1870
ClaI ATCGAT 4 cut(s) 176, 1469, 1623, 1683
CseI GACGC 1 cut(s) 983
CviAII CATG 4 cut(s) 116, 589, 875, 1541
DdeI CTNAG 3 cut(s) 1600, 1672, 1929
DpnI GATC 5 cut(s) 195, 615, 1017, 1195, 1682
DpnII GATC 5 cut(s) 193, 613, 1015, 1193, 1680
DraI TTTAAA 3 cut(s) 321, 687, 1047
Eam1104I CTCTTC 1 cut(s) 1609
EarI CTCTTC 1 cut(s) 1609
Ecl136II GAGCTC 1 cut(s) 1928
Eco24I GRGCYC 1 cut(s) 1930
Eco31I GGTCTC 1 cut(s) 1147
Eco32I GATATC 1 cut(s) 169
Eco47III AGCGCT 2 cut(s) 1692, 1869
Eco53kI GAGCTC 1 cut(s) 1928
Eco57I CTGAAG 1 cut(s) 1746
Eco88I CYCGRG 1 cut(s) 1232
EcoICRI GAGCTC 1 cut(s) 1928
EcoNI CCTNNNNNAGG 1 cut(s) 1302
EcoRI GAATTC 1 cut(s) 1775
EcoRV GATATC 1 cut(s) 169
EcoT38I GRGCYC 1 cut(s) 1930
Esp3I CGTCTC 1 cut(s) 864
FaeI CATG 4 cut(s) 119, 592, 878, 1544
FalI AAGNNNNNCTT 2 cut(s) 327, 359
FaqI GGGAC 1 cut(s) 1558
FatI CATG 4 cut(s) 115, 588, 874, 1540
FauNDI CATATG 1 cut(s) 943
FblI GTMKAC 2 cut(s) 585, 958
Fnu4HI GCNGC 7 cut(s) 348, 373, 1449, 1452, 1709, 1826, 1866
FokI GGATG 4 cut(s) 113, 290, 416, 1690
FriOI GRGCYC 1 cut(s) 1930
Fsp4HI GCNGC 7 cut(s) 348, 373, 1449, 1452, 1709, 1826, 1866
FspBI CTAG 4 cut(s) 578, 650, 1217, 1835
GlaI GCGC 3 cut(s) 634, 1692, 1869
GluI GCNGC 7 cut(s) 348, 373, 1449, 1452, 1709, 1826, 1866
HaeII RGCGCY 2 cut(s) 1694, 1871
HapII CCGG 1 cut(s) 917
HgaI GACGC 1 cut(s) 983
HhaI GCGC 3 cut(s) 635, 1693, 1870
Hin1I GRCGYC 1 cut(s) 1732
Hin1II CATG 4 cut(s) 119, 592, 878, 1544
Hin6I GCGC 3 cut(s) 633, 1691, 1868
HinP1I GCGC 3 cut(s) 633, 1691, 1868
HincII GTYRAC 2 cut(s) 855, 1360
HindII GTYRAC 2 cut(s) 855, 1360
HindIII AAGCTT 3 cut(s) 659, 712, 788
HpaII CCGG 1 cut(s) 917
HphI GGTGA 4 cut(s) 172, 291, 509, 838
Hpy166II GTNNAC 5 cut(s) 530, 586, 855, 959, 1360
Hpy188I TCNGA 6 cut(s) 198, 1499, 1784, 1880, 1932, 1972
Hpy8I GTNNAC 5 cut(s) 530, 586, 855, 959, 1360
Hpy99I CGWCG 1 cut(s) 1355
HpyAV CCTTC 6 cut(s) 146, 943, 1376, 1664, 1721, 1765
HpyCH4III ACNGT 2 cut(s) 53, 206
HpyCH4IV ACGT 2 cut(s) 857, 1732
HpyCH4V TGCA 9 cut(s) 44, 309, 372, 1031, 1063, 1259, 1451, 1577, 1715
HpyF10VI GCNNNNNNNGC 4 cut(s) 378, 632, 1574, 1625
HpyF3I CTNAG 3 cut(s) 1600, 1672, 1929
HpySE526I ACGT 2 cut(s) 857, 1732
Hsp92I GRCGYC 1 cut(s) 1732
Hsp92II CATG 4 cut(s) 119, 592, 878, 1544
HspAI GCGC 3 cut(s) 633, 1691, 1868
Kzo9I GATC 5 cut(s) 193, 613, 1015, 1193, 1680
LguI GCTCTTC 1 cut(s) 1609
LmnI GCTCC 3 cut(s) 475, 1262, 1385
Lsp1109I GCAGC 7 cut(s) 334, 384, 1435, 1463, 1695, 1812, 1877
LweI GCATC 8 cut(s) 31, 91, 490, 1197, 1461, 1555, 1615, 1724
MaeI CTAG 4 cut(s) 578, 650, 1217, 1835
MaeII ACGT 2 cut(s) 857, 1732
MaeIII GTNAC 3 cut(s) 64, 1324, 1489
MalI GATC 5 cut(s) 195, 615, 1017, 1195, 1682
MboI GATC 5 cut(s) 193, 613, 1015, 1193, 1680
MfeI CAATTG 1 cut(s) 675
MhlI GDGCHC 1 cut(s) 1930
MluCI AATT 7 cut(s) 356, 482, 675, 1081, 1775, 1874, 1977
MlyI GAGTC 1 cut(s) 1109
MroXI GAANNNNTTC 2 cut(s) 81, 1082
MslI CAYNNNNRTG 1 cut(s) 593
MspI CCGG 1 cut(s) 917
MspR9I CCNGG 1 cut(s) 917
MunI CAATTG 1 cut(s) 675
Mva1269I GAATGC 1 cut(s) 1261
MvnI CGCG 3 cut(s) 635, 1242, 1322
MwoI GCNNNNNNNGC 4 cut(s) 378, 632, 1574, 1625
NciI CCSGG 1 cut(s) 917
NdeI CATATG 1 cut(s) 943
NdeII GATC 5 cut(s) 193, 613, 1015, 1193, 1680
NheI GCTAGC 3 cut(s) 577, 649, 1216
NlaIII CATG 4 cut(s) 119, 592, 878, 1544
NlaIV GGNNCC 1 cut(s) 1792
PagI TCATGA 2 cut(s) 115, 874
PciSI GCTCTTC 1 cut(s) 1609
PctI GAATGC 1 cut(s) 1261
PdmI GAANNNNTTC 2 cut(s) 81, 1082
PflFI GACNNNGTC 1 cut(s) 1355
PkrI GCNGC 7 cut(s) 349, 374, 1450, 1453, 1710, 1827, 1867
PleI GAGTC 1 cut(s) 1109
PpsI GAGTC 1 cut(s) 1109
PshBI ATTAAT 1 cut(s) 485
Psp124BI GAGCTC 1 cut(s) 1930
PspN4I GGNNCC 1 cut(s) 1792
PstI CTGCAG 1 cut(s) 1453
PsyI GACNNNGTC 1 cut(s) 1355
RseI CAYNNNNRTG 1 cut(s) 593
SacI GAGCTC 1 cut(s) 1930
SapI GCTCTTC 1 cut(s) 1609
SatI GCNGC 7 cut(s) 348, 373, 1449, 1452, 1709, 1826, 1866
Sau3AI GATC 5 cut(s) 193, 613, 1015, 1193, 1680
SchI GAGTC 1 cut(s) 1109
ScrFI CCNGG 1 cut(s) 917
SduI GDGCHC 1 cut(s) 1930
SfaNI GCATC 8 cut(s) 31, 91, 490, 1197, 1461, 1555, 1615, 1724
SfcI CTRYAG 2 cut(s) 699, 1449
SmiMI CAYNNNNRTG 1 cut(s) 593
SmlI CTYRAG 1 cut(s) 662
SmoI CTYRAG 1 cut(s) 662
Sse9I AATT 7 cut(s) 356, 482, 675, 1081, 1775, 1874, 1977
SsiI CCGC 5 cut(s) 69, 104, 1240, 1322, 1517
SspI AATATT 1 cut(s) 867
SspMI CTAG 4 cut(s) 578, 650, 1217, 1835
SstI GAGCTC 1 cut(s) 1930
StyD4I CCNGG 1 cut(s) 915
TaaI ACNGT 2 cut(s) 53, 206
TaiI ACGT 2 cut(s) 860, 1735
TasI AATT 7 cut(s) 356, 482, 675, 1081, 1775, 1874, 1977
TscAI CASTG 4 cut(s) 937, 1070, 1203, 1579
TseI GCWGC 7 cut(s) 347, 372, 1448, 1451, 1708, 1825, 1865
TspRI CASTG 4 cut(s) 937, 1070, 1203, 1579
Tth111I GACNNNGTC 1 cut(s) 1355
VspI ATTAAT 1 cut(s) 485
XagI CCTNNNNNAGG 1 cut(s) 1302
XapI RAATTY 2 cut(s) 1775, 1977
XmiI GTMKAC 2 cut(s) 585, 958
XmnI GAANNNNTTC 2 cut(s) 81, 1082
XspI CTAG 4 cut(s) 578, 650, 1217, 1835
ZraI GACGTC 1 cut(s) 1733
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.