Sequence
atgc intronic sequence ATGC exonic sequenceATAAACAACAACCTTCGCTGCTACGACCTTGCCATGGAGTTAAGTAATAGCACTTTAGAAGCTCTTCCACAAAATTATGCAGAGCAGgtaatccagctgccagtttctgagctcaatttcgttgcaattgattattttgtttggatatgtcaaattccactgcatcatgcccactctcagtcccactatactccacgtctatgtgcacatacactcttgtttgcatactaataaaatgcttctctaatgtggtgtttctgtcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G71820.2 |
intron # | 18 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G71820.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA03G03120.1 (Glycine max), 5'ss of exon 18
ATAAACAACAACCTTCGCTGCTACGACCTTGCCATGGAGTTAAGTAATAGCACTTTAGAAGCTCTTCCACAAAATTATGCAGAGCAGgtaatccagctgccagtttctgagctcaatttcgttgcaattgattattttgtttggatat-gtcaaattccactgcatcatgcccactctcagtcccactatactccacgtctatgtgcacatacactcttgtttgcatactaataaaatgcttctctaatgtggtgtttctgtcag
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ATTAACAACAATTTGCGCTGCTATGACCTTGCAATGGAGCTAAGTAATAGCACCATAGAAGCCCTTCCACAGAACTACGCTGAGCAGgt-------ttgttgttttt----cctaatttcatta-acttgataact--gttgcaatgttgacatagtcttttggaacggaagttctttatttatttttttgtttggaaaca----------------------------------------------------------------
upper sequence: AT1G71820.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv12s0034g02360.t01 (Vitis vinifera), 5'ss of exon 17
ATAAACAACAACCTTCGCTGCTACGACCTTGCCATGGAGTTAAGTAATAGCACTTTAGAAGCTCTTCCACAAAATTATGCAGAGCAGgtaatccagctgccagtttctgagctcaatttcgttgcaattgattattttgtttggatatgtcaaattccactgcatcatgcccactctcagtcccact-atactccacgtctatgtgcacatacactcttgtttgcatactaataaaatgcttctctaatgtggtgtttctgtcag
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ATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAGgttatgccgttattttctttttcccctgcatttttttcactc--ttttgaggaagaggccagttagctttcaat-taaagagttcatggtctgacctgcccat---------------------------------------------------------------------------
upper sequence: AT1G71820.2 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv03s0097g00670.t01 (Vitis vinifera), 5'ss of exon 17
ATAAACAACAACCTTCGCTGCTACGACCTTGCCATGGAGTTAAGTAATAGCACTTTAGAAGCTCTTCCACAAAATTATGCAGAGCAGgtaatccagctgccagtttctgagctcaatttcgttgcaattgattattttgtttggatatgtcaaattccactgcatcatgcccactctcagtcccactatactccacgtctatgtgcacatacactcttgtttgcatactaataaaatgcttctctaatgtggtgtttctgtcag
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ATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAGgttat---gccgttattttcttt-ttcccctgcatcttttttcactctttaga--ggaagaggccagttagctttcaattaatgagttcatgatctgaccagccca-----------------------------------------------------------------------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|163985814|gb|ES067154.1|ES067154EST: GTAATAGCACTTTAGAAGCTCTTCCACAAAATTATGCAGAGCAG GTGAATTTTGAAGACACTTGCAAAGGTTTCTTGGAGGTGGCTAAG
genomic: GTAATAGCACTTTAGAAGCTCTTCCACAAAATTATGCAGAGCAGgtaatccagc ... tttctgtcagGTGAATTTTGAAGACACTTGCAAAGGTTTCTTGGAGGTGGCTAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATAAACAACAACCTTCGCTGCTACGACCTTGCCATGGAGTTAAGTAATAGCACTTTAGAAGCTCTTCCACAAAATTATGCAGAGCAGgtaatccagctgccagtttctgagctcaatttcgttgcaattgattattttgtttggatatgtcaaattccactgcatcatgcccactctcagtcccactatactccacgtctatgtgcacatacactcttgtttgcatactaataaaatgcttctctaatgtggtgtttctgtcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG