Sequence
atgc intronic sequence ATGC exonic sequenceCCCTGGCAGAGAGTTCATCGATATTGGCCGAATTGCCTCGATTGAGAATAACCACAAGCCTGTTGACTATGCAAAGAAGGGCAACAAGGTGGCAATAAAGgtaataattggatcattctgttttaacaaggttgcaaatcttttgcttacagagaagaaaagagttatgtttgctgcggtttcagtttcacgcctcgtaatcgatggtttctttggtatacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G76810.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G76810.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA20G30590.1 (Glycine max), 5'ss of exon 10
CCCTGGCAGAGAGTTCATCGATATTGGCCGAATTGCCTCGATTGAGAATAACCACAAGCCTGTTGACTATGCAAAGAAGGGCAACAAGGTGGCAATAAAGgta-ataattggatc--------attctgttttaacaaggttgcaaatcttttgcttacagagaagaaaagagttatgtttgctgcggtttcagtttcacgcctcgtaatcgatggtttctttggtatacag
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TCCTTCTAGAGAGTTCATTGATATTGGTCGCATTGCCTCCATTGAGAATAACCACAAACCTGTTGATTATGCAAAGAAGGGGCAGAAAGTAGCCATTAAGgtatgttcttggactgaaattagatcctctataatgaacctctctaaactcaaacttttccccaatgaaaatggaatttgaaatatggattaaaaacctt--------------------------------
upper sequence: AT1G76810.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA10G37020.1 (Glycine max), 5'ss of exon 11
CCCTGGCAGAGAGTTCATCGATATTGGCCGAATTGCCTCGATTGAGAATAACCACAAGCCTGTTGACTATGCAAAGAAGGGCAACAAGGTGGCAATAAAGgtaataattggatcattctgttttaacaaggttgcaaatcttttgcttacagagaagaaaagagttatgtttgctgcggtttcagtttcacg-cctcgtaatcgatg-gtttctttggtatacag
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TCCTTCTAGAGAGTTCATTGATATTGGTCGCATTGCCTCCATTGAGAATAACCATAAACCTGTTGATTATGCAAAGAAGGGACAGAAAGTAGCCATTAAGgta------------tgttcttggactgaaatt--agatcctcta-taatgaacctctctaaactcaaacttatatc--cttaagttgcacaatgttataatccatttatatcctta--------
upper sequence: AT1G76810.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv18s0076g00310.t01 (Vitis vinifera), 5'ss of exon 11
CCCTGGCAGAGAGTTCATCGATATTGGCCGAATTGCCTCGATTGAGAATAACCACAAGCCTGTTGACTATGCAAAGAAGGGCAACAAGGTGGCAATAAAGgtaataattggatcattctgttttaacaaggttgcaaatcttttgcttacagagaagaaaagagttatgtttgctgcggtttcagtttcacgcctcgtaatcgatggtttctttggtatacag
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TCCTCAAAGGGATTTTATTGATATTGGCCGGATTGCATCCATTGAGAATAACCACAAGCCAGTTGATATTGCCAAGAAAGGCCAGAGGGTGGCGATCAAGgtatgagattgtacatag-gatataatgctttgtgatattgttggcatattgagtgtagaaatttcttgaaaatggagcagttaaccatgaaaagcgaagt----------------------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|124929301|gb|EL006859.1|EL006859EST: CCACAAGCCTGTTGACTATGCAAAGAAGGGCAACAAGGTGGCAATAAAG ATTGTTGGTTCGAATGCTGAAGAACAGAAGATGTTTGGAAGGCACTTTGAC
genomic: CCACAAGCCTGTTGACTATGCAAAGAAGGGCAACAAGGTGGCAATAAAGgtaataattg ... tggtatacagATTGTTGGTTCGAATGCTGAAGAACAGAAGATGTTTGGAAGGCACTTTGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCCTGGCAGAGAGTTCATCGATATTGGCCGAATTGCCTCGATTGAGAATAACCACAAGCCTGTTGACTATGCAAAGAAGGGCAACAAGGTGGCAATAAAGgtaataattggatcattctgttttaacaaggttgcaaatcttttgcttacagagaagaaaagagttatgtttgctgcggtttcagtttcacgcctcgtaatcgatggtttctttggtatacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG