Sequence
atgc intronic sequence ATGC exonic sequenceTACTAGCCAGCCTCCTTTTGTTTTCAAGGCTCAGTTGTATGATTTGAGTGGAGTTCCGCCTGAGCGGCAAAAGATCATGGTCAAAGGTGGCCTTTTGAAGgtaatttggattcacttgcctgctgcgtgtttgtagttttactgctgtgttcctctatttgtttgttgatgatgatttacgataggtttcttttaattttcgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G21280.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G21280.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G017086_T01 (Zea mays), 5'ss of exon 2
TACTAGCCAGCCTCCTTTTGTTTTCAAGGCTCAGTTGTATGATTTGAGTGGAGTTCCGCCTGAGCGGCAAAAGATCATGGTCAAAGGTGGCCTTTTGAAGgtaatttggattcacttgcctgctgcgtgtttgtagttttactgctgtgttcctctatttgtttgttgatgatgattt-acgataggttt-cttttaattttcgcag
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CACTAGCCAGCCTCCGATTGTTTTCAAGACTCAGTTGTACACACTAACTGGTGTGCCACCTGAACGCCAAAAAATTATGGTGAAGGGAGGAATATTGAAGgtaa---------actattttgtta-gtgcttatagattcatttgtccattgggc-atgcatacattg-taataactggatgacgtgtttgctgtgcaataatacag
upper sequence: AT3G21280.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G20900.1 (Glycine max), 5'ss of exon 2
TACTAGCCAGCCTCCTTTTGTTTTCAAGGCTCAGTTGTATGATTTGAGTGGAGTTCCGCCTGAGCGGCAAAAGATCATGGTCAAAGGTGGCCTTTTGAAGgtaatttggattcacttgcctgctgcgtgtttgtagttttactgctgtgttcctctatttgtttgttgatgatgatttacgataggtttcttttaattttcgcag
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CACTACCCAGTCTGCTTATGTTTTTAAATGCCAATTGTATGATTTGACTGGTGTGCCTCCTGAAAGACAAAAAATTATGGTCAAGGGTGGTCTTTTGAAGgtaagtaga--ttgttgaagtgatat-tgtaagaaataaccaaacttagcctaaccatgc-tttatccaatttgattt-tgatatttcattattaataatcagtgMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|19876163|gb|AU236994.1|AU236994EST: GAGTTCCGCCTGAGCGGCAAAAGATCATGGTCAAAGGTGGCCTTTTGAAG GATGATGCAGATTGGTCTACGTTGGGACTGAAAAAT
genomic: GAGTTCCGCCTGAGCGGCAAAAGATCATGGTCAAAGGTGGCCTTTTGAAGgtaatttgga ... attttcgcagGATGATGCAGATTGGTCTACGTTGGGACTGAAAAAT
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TACTAGCCAGCCTCCTTTTGTTTTCAAGGCTCAGTTGTATGATTTGAGTGGAGTTCCGCCTGAGCGGCAAAAGATCATGGTCAAAGGTGGCCTTTTGAAGgtaatttggattcacttgcctgctgcgtgtttgtagttttactgctgtgttcctctatttgtttgttgatgatgatttacgataggtttcttttaattttcgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG