Sequence
atgc intronic sequence ATGC exonic sequenceAACTGACAGAGACCATGCAAAAGCTTCTTATTGTAATGCAAAGACTAGATGACAAGATTGGTCTAATGCTGGAAACAGATGGCGAGCTCTTTAACAAAAGgtaaaaagaaaaagacaaacaaatgtagtaagattactcaagattcacagaaagggatatgtctgagccataattcttgggctgttttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G48960.1 |
intron # | 14 |
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 14
lower sequence: GLYMA17G04580.1 (Glycine max), 5'ss of exon 14
AACTGACAGAGACCATGCAAAAGCTTCTTATTGTAATGCAAAGACTAGATGACAAGATTGGTCTAATGCTGGAAACAGATGGCGAGCTCTTTAACAAAAGgtaaaaagaaaaagacaaacaaatgtagtaaga-----ttactcaagattcacagaaagggatatgtctgagccataattcttgggctgttttgcag---
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ACCTCACTGATAGCATGCAAAAGCTACTTATTGTTATGCAAAGACTGGATGAGAAAATTGCTCCAATGCTGGAGGCAGATGGGGAGCTCTTCAATTCAAGgtaagttcaatggataggacttttgattcagaagctccctaatcgtacttgatctgtacttagtttattgacttctgccacatggctaaatatgtgaacc
upper sequence: AT5G48960.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA13G17950.1 (Glycine max), 5'ss of exon 14
AACTGACAGAGACCATGCAAAAGCTTCTTATTGTAATGCAAAGACTAGATGACAAGATTGGTCTAATGCTGGAAACAGATGGCGAGCTCTTTAACAAAAGgtaaaaagaaaaagacaaacaaatgtagtaagattactcaagattcaca-gaaagggatatgtctgagccataattcttgggctgttttgcag-------
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ACCTCACTGATAGCATGCAAAAGCTACTTATTGTTATGCAAAGACTGGATGAGAAAATTGCTCCAATGCTGGAGGCAGATGGGGAGCTCTTCAATTCAAGgtaagctcaatggatagagcttttgattcagaagctccctaattgtactcggtctgtacttagtttattgacttctgccagatggctaaatatgtgaacc
upper sequence: AT5G48960.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA15G21240.1 (Glycine max), 5'ss of exon 13
AACTGACAGAGACCATGCAAAAGCTTCTTATTGTAATGCAAAGACTAGATGACAAGATTGGTCTAATGCTGGAAACAGATGGCGAGCTCTTTAACAAAAGgtaaaaagaaaaagacaaacaaatgtagta-agattactcaagattcacagaaagggatatgtctgagccataattcttgggctgttt-tgcag-------
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ATCTTACTGAACGCATGCAAAAGTTACTTCTTGTTATGCAAATACTAGATGGAAAAATTGCTCCAATGCTAGAGGCAGATGGGGAGCTCTTTAATAAAAAgtaagttcaaagaacaggtctattgatttacaaattctttatcatactctgttattattg-atttccgccacaggtctgtatatatacacatagcttattcMapped 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|163969400|gb|ES130026.1|ES130026EST: TGGCGAGCTCTTTAACAAAAG GTGGGGCTTCCTCTCACGCGCGGGTTTGTGGGATAAAAGCCACTTGATGAG
genomic: TGGCGAGCTCTTTAACAAAAGgtaaaaagaa ... tgttttgcagGTGGGGCTTCCTCTCACGCGCGGGTTTGTGGGATAAAAGCCACTTGATGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AACTGACAGAGACCATGCAAAAGCTTCTTATTGTAATGCAAAGACTAGATGACAAGATTGGTCTAATGCTGGAAACAGATGGCGAGCTCTTTAACAAAAGgtaaaaagaaaaagacaaacaaatgtagtaagattactcaagattcacagaaagggatatgtctgagccataattcttgggctgttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG