AT3G28140
ERF Family

2'-5' RNA ligase superfamily

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0004409
Physical Location & Seq
Forward (+)
10470392 .. 10471523
1132 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G28140.1

Sequence Viewer

Length: 555 bp
ATGTCGCAAGGCTACGCAATCGAGCTCTACTTCGATCCAGCACTCGAGAACCAAGTCTTGAAAGCTTGGAACGTCTTCGCTCGTCGTCAAATCAGTACATATCTAATCAACAACGAGTCTCGTCCACACATAACCTTATTCTCAACTACTTCATCCATCGATTCAACAAAGCTTGAACCAATCATCAAATCATTCTCATCTAAACAAGAACCAATCTCACTCTCTTTCTCTTCAATAGGAAGCTTTTCTAGTGACGACAATGCTCTGTTTCTTTCGCCGACGCCGTCTCTTTCGCTTATTCAGCTTCAGCTTCAGTTATGTGAAGTGATTAAGAAAGAAGGGTTTGAGATTGGTGAAGAGTATCGTGTTGATTCTTGGGTTCCGTTTTGTTCTGTGGCTGTTGATGTTCCTAAGTCACGTATCTCTGAAGGGTTTTTGGTTTTGAGAGATTTGAAGCTTCTTGTTTATGGTTATGCTATGGATATTGGTCTTGTTGAGTTTTCTCCTGTTCGTGAAGTTTTCTCTTTTGGTCTTGGTAACAATTTGGAATCTTGA
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
2_5_RNA_ligase2

Protein Analysis

184

Amino Acids

20.64

Weight (kDa)

4.75

Isoelectric Point (pI)

52.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
2_5_RNA_ligase2 PF13563 30 - 138 3e-13 2'-5' RNA ligase superfamily
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 29
AcuI CTGAAG 3 cut(s) 290, 296, 447
AcyI GRCGYC 1 cut(s) 281
AfaI GTAC 1 cut(s) 97
AgsI TTSAA 5 cut(s) 61, 165, 176, 234, 454
AluBI AGCT 7 cut(s) 25, 65, 172, 243, 304, 310, 457
AluI AGCT 7 cut(s) 25, 65, 172, 243, 304, 310, 457
Alw21I GWGCWC 1 cut(s) 27
Alw26I GTCTC 2 cut(s) 123, 291
AlwI GGATC 1 cut(s) 29
Ama87I CYCGRG 1 cut(s) 44
Asp700I GAANNNNTTC 2 cut(s) 74, 244
AsuHPI GGTGA 1 cut(s) 365
AvaI CYCGRG 1 cut(s) 44
BanII GRGCYC 1 cut(s) 27
BbsI GAAGAC 1 cut(s) 67
Bbv12I GWGCWC 1 cut(s) 27
BccI CCATC 1 cut(s) 164
BceAI ACGGC 1 cut(s) 268
BcoDI GTCTC 2 cut(s) 123, 291
BfaI CTAG 1 cut(s) 249
BmeT110I CYCGRG 1 cut(s) 44
BmiI GGNNCC 1 cut(s) 381
BpiI GAAGAC 1 cut(s) 67
Bsa29I ATCGAT 1 cut(s) 159
BsaAI YACGTR 1 cut(s) 419
BsaHI GRCGYC 1 cut(s) 281
BseCI ATCGAT 1 cut(s) 159
BseGI GGATG 1 cut(s) 152
BshVI ATCGAT 1 cut(s) 159
BsiHKAI GWGCWC 1 cut(s) 27
BsiHKCI CYCGRG 1 cut(s) 44
BsmAI GTCTC 2 cut(s) 123, 291
BsmBI CGTCTC 1 cut(s) 291
BsoBI CYCGRG 1 cut(s) 44
Bsp1286I GDGCHC 1 cut(s) 27
Bsp143I GATC 1 cut(s) 34
BspDI ATCGAT 1 cut(s) 159
BspLI GGNNCC 1 cut(s) 381
BspPI GGATC 1 cut(s) 29
BssMI GATC 1 cut(s) 34
BssNI GRCGYC 1 cut(s) 281
Bst6I CTCTTC 2 cut(s) 235, 351
BstACI GRCGYC 1 cut(s) 281
BstBAI YACGTR 1 cut(s) 419
BstDEI CTNAG 1 cut(s) 411
BstF5I GGATG 1 cut(s) 152
BstKTI GATC 1 cut(s) 37
BstMAI GTCTC 2 cut(s) 123, 291
BstMBI GATC 1 cut(s) 34
BstMWI GCNNNNNNNGC 1 cut(s) 301
BstV2I GAAGAC 1 cut(s) 67
Bsu15I ATCGAT 1 cut(s) 159
BsuTUI ATCGAT 1 cut(s) 159
BtsCI GGATG 1 cut(s) 152
ClaI ATCGAT 1 cut(s) 159
CseI GACGC 1 cut(s) 289
Csp6I GTAC 1 cut(s) 96
CviJI RGCY 9 cut(s) 12, 25, 65, 172, 243, 304, 310, 398, 457
CviKI_1 RGCY 9 cut(s) 12, 25, 65, 172, 243, 304, 310, 398, 457
CviQI GTAC 1 cut(s) 96
DdeI CTNAG 1 cut(s) 411
DpnI GATC 1 cut(s) 36
DpnII GATC 1 cut(s) 34
Eam1104I CTCTTC 2 cut(s) 235, 351
EarI CTCTTC 2 cut(s) 235, 351
Ecl136II GAGCTC 1 cut(s) 25
Eco24I GRGCYC 1 cut(s) 27
Eco53kI GAGCTC 1 cut(s) 25
Eco57I CTGAAG 3 cut(s) 290, 296, 447
Eco88I CYCGRG 1 cut(s) 44
EcoICRI GAGCTC 1 cut(s) 25
EcoT38I GRGCYC 1 cut(s) 27
Esp3I CGTCTC 1 cut(s) 291
FaiI YATR 6 cut(s) 100, 131, 319, 468, 474, 479
FokI GGATG 1 cut(s) 139
FriOI GRGCYC 1 cut(s) 27
FspBI CTAG 1 cut(s) 249
HgaI GACGC 1 cut(s) 289
Hin1I GRCGYC 1 cut(s) 281
HindIII AAGCTT 4 cut(s) 63, 170, 241, 455
HinfI GANTC 4 cut(s) 116, 161, 371, 548
HphI GGTGA 1 cut(s) 365
Hpy166II GTNNAC 1 cut(s) 125
Hpy188I TCNGA 1 cut(s) 427
Hpy188III TCNNGA 4 cut(s) 46, 58, 512, 552
Hpy8I GTNNAC 1 cut(s) 125
Hpy99I CGWCG 2 cut(s) 87, 283
HpyAV CCTTC 2 cut(s) 332, 422
HpyCH4IV ACGT 2 cut(s) 72, 418
HpyF10VI GCNNNNNNNGC 1 cut(s) 301
HpyF3I CTNAG 1 cut(s) 411
HpySE526I ACGT 2 cut(s) 72, 418
Hsp92I GRCGYC 1 cut(s) 281
Kzo9I GATC 1 cut(s) 34
LpnPI CCDG 2 cut(s) 51, 519
MaeI CTAG 1 cut(s) 249
MaeII ACGT 2 cut(s) 72, 418
MaeIII GTNAC 3 cut(s) 251, 414, 536
MalI GATC 1 cut(s) 36
MboI GATC 1 cut(s) 34
MboII GAAGA 3 cut(s) 67, 222, 368
MhlI GDGCHC 1 cut(s) 27
MluCI AATT 1 cut(s) 541
MlyI GAGTC 1 cut(s) 125
MroXI GAANNNNTTC 2 cut(s) 74, 244
MseI TTAA 1 cut(s) 330
MwoI GCNNNNNNNGC 1 cut(s) 301
NdeII GATC 1 cut(s) 34
NlaIV GGNNCC 1 cut(s) 381
NmuCI GTSAC 2 cut(s) 251, 414
PaeR7I CTCGAG 1 cut(s) 44
PcsI WCGNNNNNNNCGW 1 cut(s) 281
PdmI GAANNNNTTC 2 cut(s) 74, 244
PfeI GAWTC 3 cut(s) 161, 371, 548
PflFI GACNNNGTC 1 cut(s) 283
PleI GAGTC 1 cut(s) 124
PpsI GAGTC 1 cut(s) 124
Ppu21I YACGTR 1 cut(s) 419
Psp124BI GAGCTC 1 cut(s) 27
PspN4I GGNNCC 1 cut(s) 381
PsyI GACNNNGTC 1 cut(s) 283
RsaI GTAC 1 cut(s) 97
RsaNI GTAC 1 cut(s) 96
SacI GAGCTC 1 cut(s) 27
SaqAI TTAA 1 cut(s) 330
Sau3AI GATC 1 cut(s) 34
SchI GAGTC 1 cut(s) 125
SduI GDGCHC 1 cut(s) 27
Sfr274I CTCGAG 1 cut(s) 44
SlaI CTCGAG 1 cut(s) 44
SmlI CTYRAG 1 cut(s) 44
SmoI CTYRAG 1 cut(s) 44
Sse9I AATT 1 cut(s) 541
SspMI CTAG 1 cut(s) 249
SstI GAGCTC 1 cut(s) 27
TaiI ACGT 2 cut(s) 75, 421
TaqI TCGA 4 cut(s) 21, 33, 45, 159
TasI AATT 1 cut(s) 541
TatI WGTACW 1 cut(s) 95
TfiI GAWTC 3 cut(s) 161, 371, 548
Tru1I TTAA 1 cut(s) 330
Tru9I TTAA 1 cut(s) 330
TseFI GTSAC 2 cut(s) 251, 414
Tsp45I GTSAC 2 cut(s) 251, 414
TspDTI ATGAA 1 cut(s) 141
TspGWI ACGGA 1 cut(s) 372
Tth111I GACNNNGTC 1 cut(s) 283
XhoI CTCGAG 1 cut(s) 44
XmnI GAANNNNTTC 2 cut(s) 74, 244
XspI CTAG 1 cut(s) 249
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.