Sequence
atgc intronic sequence ATGC exonic sequenceTGGGGCTACTGATTATGGTGTAGGTATTGATCTTTGGAGTGCCGGCTGTATTTTAGCTGAGCTATTGGCGGGAAGACCTATTATGCCCGGTCGGACAGAGgtatcttatcaatccatcatcttaatatttccctccatatgcaagttatgtcctctatttccctagtatctaaaatctgcttgtatgcatgcttatgttcatcatgaaatag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G54610.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G54610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G42960.1 (Glycine max), 5'ss of exon 3
TGGGGCTACTGATTATGGTGTAGGTATTGATCTTTGGAGTGCCGGCTGTATTTTAGCTGAGCTATTGGCGGGAAGACCTATTATGCCCGGTCGGACAGAGgtatcttatca-atccatcatcttaatatttccctccatatgcaagttatgtcctctatttccctagtatctaaaatctgcttgtatgcatgcttatgttcatcatgaaatag
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TGGTGCCACAGATTATGGTGTGGGTGTAGACCTCTGGAGTGCCGGATGTATTTTAGGAGAGTTATTGGCTGGGAAGCCAATCATGCCTGGTCGTACAGAGgtaacaattcacatatctcatcttgttggcttgtatgatttttct-tcattttcctgattttc--agtgtcacaagtat-cttaggtaattctgtgaatctgtg---------
upper sequence: AT1G54610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0030g01260.t01 (Vitis vinifera), 5'ss of exon 6
TGGGGCTACTGATTATGGTGTAGGTATTGATCTTTGGAGTGCCGGCTGTATTTTAGCTGAGCTATTGGCGGGAAGACCTATTATGCCCGGTCGGACAGAGgtatcttatcaatccatcatcttaatatttccctccatatgcaagttatgtcctctatttccctagtatctaaaatctgcttgtatgcatgcttatgttcatcatgaaatag
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TGGGGCTAATGACTATGGCGTCGGTGTGGACTTGTGGAGTGCAGGCTGCATTTTAGCTGAGTTATTGGCTGGGAAGCCCATCATGCCTGGTCGTACAGAGgta----accgttgtactttctta-tcttaatttgtaaattttgtctttgcaccacatacgactatctgtaacaactttcctttatatctgttttattattttct-------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|116455375|gb|EG497967.1|EG497967EST: TTTTAGCTGAGCTATTGGCGGGAAGACCTATTATGCCCGGTCGGACAGAG GTAGAGCAGCTACATAAGATTTACAAGCTGTG
genomic: TTTTAGCTGAGCTATTGGCGGGAAGACCTATTATGCCCGGTCGGACAGAGgtatcttatc ... catgaaatagGTAGAGCAGCTACATAAGATTTACAAGCTGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGGGCTACTGATTATGGTGTAGGTATTGATCTTTGGAGTGCCGGCTGTATTTTAGCTGAGCTATTGGCGGGAAGACCTATTATGCCCGGTCGGACAGAGgtatcttatcaatccatcatcttaatatttccctccatatgcaagttatgtcctctatttccctagtatctaaaatctgcttgtatgcatgcttatgttcatcatgaaatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA