Sequence
atgc intronic sequence ATGC exonic sequenceAGTGAGATAATGTCCAAGCCGGAACTATTTGTCGAGCCAGACCCAGAACTACCTTTAGCTCTTTTAGATCAAAAGGAGgtaatggttcagtctttacacaatatatctaactatgatggtttcagttgttaatattgtcatgttcgttcatag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G48960.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G48960.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os01g14810.2 (Oryza sativa), 5'ss of exon 9
AGTGAGATAATGTCCAAGCCGGAACTATTTGTCGAGCCAGACCCAGAACTACCTTTAGCTCTTTTAGATCAAAAGGAGgtaatggttcagtctttacacaatat----atctaactatgatggtttcagttgttaatattgtcatgttcgttcatag----------------------
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AGTGAGATAATGGCTGAGCCGGAACGATTTGTAGAGCCTGATCCTGAACTGCCTTTAGCTCTTCTGGATCAAAAGGAGgttaacacacaattaccttacaagttcatgatccattaataatattagaacttttgtacttctctgcattactttgctgatttcccctttcaactcatcag
upper sequence: AT5G48960.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G044819_T02 (Zea mays), 5'ss of exon 8
AGTGAGATAATGTCCAAGCCGGAACTATTTGTCGAGCCAGACCCAGAACTACCTTTAGCTCTTTTAGATCAAAAGGAGgtaatggttcagtctttacacaatatatctaactatg-atggtttc-agttgttaatat-tgtcatgttcgttcatag-------------------------
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AGAGAAATAATGGCTGAGCCTGATCGGTTTGTAGAGCCTGATCCAGAACTTCCTTTAGCTCTTCTTGATCAAAAAGAGgt--tagcacagttccaccttattat-tagagatatgtatagtctagagatatgtatgtactttacttatactctaagttgtatcttgattatatatatgaaa
upper sequence: AT5G48960.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA13G17950.1 (Glycine max), 5'ss of exon 9
AGTGAGATAATGTCCAAGCCGGAACTATTTGTCGAGCCAGACCCAGAACTACCTTTAGCTCTTTTAGATCAAAAGGAGgtaatggttcagtctttacacaatatatctaac----tatgatggt-ttcagttgttaatattgtcatgttcgttca-tag
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AGTGAGATCATGTCTAAGCCTGAACTATTTGTGGAGCCTGATCCAGAATTACCTTTGGCACTTTTGGATCAGAAGGAGgtattacttctaatgttttatattttgcataacatattataatgcccttctactgcttatttagttgtcttcatgaaacagMapped 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|125065477|gb|EL132692.1|EL132692EST: TCTTTTAGATCAAAAGGAG GCTGGTAAGAAGCTCTTGCTTATCACAAACTCGGATTATCACTACACAGAC
genomic: TCTTTTAGATCAAAAGGAGgtaatggttc ... tcgttcatagGCTGGTAAGAAGCTCTTGCTTATCACAAACTCGGATTATCACTACACAGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTGAGATAATGTCCAAGCCGGAACTATTTGTCGAGCCAGACCCAGAACTACCTTTAGCTCTTTTAGATCAAAAGGAGgtaatggttcagtctttacacaatatatctaactatgatggtttcagttgttaatattgtcatgttcgttcatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG