Sequence
atgc intronic sequence ATGC exonic sequenceTCGCACTGGATTGGAAAAGATTACTACAAAAGAGGACCTGATGGAAACGACATTCACAAAACAAACGTGCCACACATAAGGGTGGAGTTCCGTGACACGgtatggaatgaaatatatttattcttcacacaagttaatttctctttgtaggaaaacaaattaaaaatatgaagttgatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G38280.1 |
intron # | 18 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G38280.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GRMZM2G416667_T01 (Zea mays), 5'ss of exon 18
TCGCACTGGATTGGAAAAGATTACTACAAAAGAGGACCTGATGGAAACGACATTCACAAAACAAACGTGCCACACATAAGGGTGGAGTTCCGTGACACGgtatggaatgaaatatatttattcttcacacaagttaatttctctttgtaggaaaacaaat-taaaaatatgaagttgatgcag
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GCGCACTGGATTGGTAAGAACTACTTCAAAAGAGGACCTGCTGGAAATGATATTCACAGAACCAATGTACCGCACATCAGGGTTCAATTTAGAGAGATGgtataaaattctgt-tctccctttattgtcttggcaagtggtattttggtgaaatctgactcttaaactgttcccctttatcag
upper sequence: AT2G38280.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv08s0105g00570.t01 (Vitis vinifera), 5'ss of exon 18
TCGCACTGGATTGGAAAAGATTACTACAAAAGAGGACCTGATGGAAACGACATTCACAAAACAAACGTGCCACACATAAGGGTGGAGTTCCGTGACACGgtatggaatgaaatatatttattcttcacacaagttaatttctctttgtaggaaaacaaattaaaaatatgaagttgatgcag-----------------
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TCACACTGGATTGGCCAAGAATATTACAAGAGGGGACCAGATGGAAATGATATTCGCAAGACAAATGTGCCTCATATCCGGGTGGAATTCCGTGAAACGgtatgggtttgattccgtcttttctcaagcgttgctatatatgcttttcagctttcatgctttaacatttttttaaggccttgtctggatctcagaaactMapped 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|125146492|gb|EL181193.1|EL181193EST: ACATTCACAAAACAAACGTGCCACACATAAGGGTGGAGTTCCGTGACACG ATCTGGAAAGAGGAGATGCAACAGGTTTATCTGGG
genomic: ACATTCACAAAACAAACGTGCCACACATAAGGGTGGAGTTCCGTGACACGgtatggaatg ... gttgatgcagATCTGGAAAGAGGAGATGCAACAGGTTTATCTGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCGCACTGGATTGGAAAAGATTACTACAAAAGAGGACCTGATGGAAACGACATTCACAAAACAAACGTGCCACACATAAGGGTGGAGTTCCGTGACACGgtatggaatgaaatatatttattcttcacacaagttaatttctctttgtaggaaaacaaattaaaaatatgaagttgatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG