Sequence
atgc intronic sequence ATGC exonic sequenceGGTCTTGATAAGAATTGTTTGGGACCATTGAGAAAAGCATACTGCAGCTCCCTGAACTTGCTCCTTCGTCGAGAGgtgaggaaagatatatgtttctttatcaatttgaccgctgactaactgggactcttaattgactaaaaggctgctataacctactgaatgttaatgtgtggataatcagcaaacattttattgtcttccttagctttaaattttcagttaccaaagctttgtttcttcaaaatatacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G47550.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G47550.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA04G03710.1 (Glycine max), 5'ss of exon 13
GGTCTTGATAAGAATTGTTTGGGACCATTGAGAAAAGCATACTGCAGCTCCCTGAACTTGCTCCTTCGTCGAGAGgtgaggaaagatatatgtttctttatcaatttgaccgctgactaactgggactcttaattgactaaaaggctgctataacctactgaatg-ttaatgtgtggataatcagcaaacattttattgtcttccttagctttaaattttcagttaccaaagctttgtttcttcaaaatatacag
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ATTCTTGATAAGAATTGCTTGGGTCCACTGAGAAAAGCTTATTGCAGTTCTCTAAACTTGCTTCTTCGCAGGGAGgtaagagattaca---acctattcacccactgtattggta--ttattttttttatttcttggtcatttggtggtaaaattcttgttattactttagctttttatg---------------------------------------------------------------------------
upper sequence: AT1G47550.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 13
GGTCTTGATAAGAATTGTTTGGGACCATTGAGAAAAGCATACTGCAGCTCCCTGAACTTGCTCCTTCGTCGAGAGgtgaggaaagatatatgtttcttt--atcaatttgaccgctgactaactgggactcttaattgactaaaag--gctgctataacctactgaatgttaatgtgtggataatcagcaaacattttattgtcttccttagctttaaattttcagttaccaaagctttgtttcttcaaaatatacag
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AGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCCCTTAACTTGCTTCTTCGTCGAGAGgtagggaatgatgaaccttttattcaatcattgtgatttttacttattttttatattttatattccatatgcaaatggagtaaatgatttttttttattg-----------------------------------------------------------------------------------Mapped 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|164099657|gb|ES128212.1|ES128212EST: CCCTGAACTTGCTCCTTCGTCGAGAG GCTCGTGAATTCGCGAATGAGCTTCGTGCAAGACACAAAAGTATCACGAAA
genomic: CCCTGAACTTGCTCCTTCGTCGAGAGgtgaggaaag ... aaatatacagGCTCGTGAATTCGCGAATGAGCTTCGTGCAAG-CACAAAAGTATCACGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTCTTGATAAGAATTGTTTGGGACCATTGAGAAAAGCATACTGCAGCTCCCTGAACTTGCTCCTTCGTCGAGAGgtgaggaaagatatatgtttctttatcaatttgaccgctgactaactgggactcttaattgactaaaaggctgctataacctactgaatgttaatgtgtggataatcagcaaacattttattgtcttccttagctttaaattttcagttaccaaagctttgtttcttcaaaatatacag
- - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - CAGCTC