Sequence
atgc intronic sequence ATGC exonic sequence...ttgagtgtaaatgctgatggcttgatttccaaagcttttcttcttctaaagtatttgtccccaattttaatttgctatacttatctgttacattgtgtagCCGATTTGGGACTTGGCCTGTTGCTATGCTCGCACAAAGCAAAAACAAGGCCATCCTTGAAGGTCCAGTATGCAATGGAAGTCAAGTAATAGGATGGCAC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G27600.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G27600.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA04G09470.1 (Glycine max), 3'ss of exon 3
ttgagtgtaaatgctgatggcttgatttccaaagcttttcttcttctaaagtatttgtccccaat---tttaatttgctatacttatctgttacattg----tgtagCCGATTTGGGACTTGGCCTGTTGCTATGCTCGCACAAAGCAAAAACAAGGCCATCCTTGAAGGTCCAGTATGCAATGGAAGTCAAGTAATAGGATGGCAC
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----atgtcgatc---actgttttatcagctattctgctcatcatttaacttttatctttcttgtacatttatgttcctatgttctaacattgaactgattttgtagCCGCTTTGGCACTTGGCCTGTTGCCATGCTTGCGCCAAGCAAAAACAAGGCCATTTTGGAGGGTCCTGTATGCAATGCAAGCCAAGTGATTGGATGGCAT
upper sequence: AT1G27600.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA06G09560.1 (Glycine max), 3'ss of exon 1
ttgagtgtaaatgctgatggcttgatttccaaagcttttcttcttctaaagtatttgtccccaattttaatttgctatacttatc------tgttacattg----tgtagCCGATTTGGGACTTGGCCTGTTGCTATGCTCGCACAAAGCAAAAACAAGGCCATCCTTGAAGGTCCAGTATGCAATGGAAGTCAAGTAATAGGATGGCAC
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----------ctgcacatcattcaatttttaaccattcttcctttataaattgtgtcctctcacttgtacatttatattcctatgttctaatgttgaactggttttgtagCCGCTTTGGCACTTGGCCTGTTGCCATGCTTGTGCCAAGCAAGAACAAGGCCATTTTGGAGGGTCCTGTATGCAATGCAAGCCAAGTGATTGGATGGCAT
upper sequence: AT1G27600.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv18s0001g08150.t01 (Vitis vinifera), 3'ss of exon 1
ttgagtgtaaatgctgatggcttgatttccaaagcttttcttcttctaaagtatttgtccccaattt-----taatttgctatacttatctg-ttacattgtgtagCCGATTTGGGACTTGGCCTGTTGCTATGCTCGCACAAAGCAAAAACAAGGCCATCCTTGAAGGTCCAGTATGCAATGGAAGTCAAGTAATAGGATGGCAC
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----ttaaaattcctggtg--ttatcatcatgaattttaccattttttcttgattttcctcctatttcttgctaatccataatgttgatctacttgtgattgatagCCGATTTGGCACATGGCCTGTTGCCATGCTTGCACAAAGCAAAAACAAGGCAATATTAGAAGGTCCTGTCTGCAATGGAAGCCAAGTAATTGGATGGCACMapped 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|125314631|gb|EL328716.1|EL328716EST: CAAAGCTTGAGACAAATCAG CCGATTTGGGACTTGGCCTGTTGCTATGCTCGCACAAAGCAAAAACAAGGC
genomic: CAAAGCTTGAGACAAATCAGgtgactcaaa ... cattgtgtagCCGATTTGGGACTTGGCCTGTTGCTATGCTCGCACAAAGCAAAAACAAGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaaagtatttgtccccaattttaatttgctatacttatctgttacattgtgtagCCGATTTGGGACTTGGCCTGTTGCTATGCTCGCACAAAGCAAAAACAAGGCCATCCTTGAAGGTCCAGTATGCAATGGAAGTCAAGTAATAGGATGGCAC
aattttaatttgctat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgagtgtaaatgctgatggcttgatttccaaagcttttcttcttctaaagtatttgtccccaattttaatttgctatacttatctgttacattgtgtagCCGATTTGGGACTTGGCCTGTTGCTATGCTCGCACAAAGCAAAAACAAGGCCATCCTTGAAGGTCCAGTATGCAATGGAAGTCAAGTAATAGGATGGCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - ccaaagc
- - - - - - - - - - - - - - - - - - - - - - -ctaaagt