Sequence
atgc intronic sequence ATGC exonic sequence...ttcaccggttttattacttcgacgtcatcttattaacctgttatctttctgtcttagtcatgtacgctcaatattctatgttgcttctggttgagcgtagGCACGACAAGCATACCTTGTTGGGAATAAGGCCTTAGCCAAAGAGCTAAGTGTTAAGGGACAGTTGCATAATATGCAAATGAAGGCTGCTCATGGGAAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G26280.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G26280.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA17G33510.1 (Glycine max), 3'ss of exon 4
ttcaccggttttattacttcgacgtcatcttatta-acctgtta-tctttctgtcttagtcatgtacgctcaatattctatgttgcttctggttgagcgtagGCACGACAAGCATACCTTGTTGGGAATAAGGCCTTAGCCAAAGAGCTAAGTGTTAAGGGACAGTTGCATAATATGCAAATGAAGGCTGCTCATGGGAAAG
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--caacaactgcactttatccctgtagctgggcaagaggtgtaagtccacccatcctaatattttgtagcttgagtttaattcttcataatataataaacagGCACGACAAGCCTACCTTATTGGCAACAAGGCCCTTGCAAAGGAGCTAAGTGTTAAGGGGCAACTGCACAACATGCATATGAAAGCAGCTCATGGAAAAG
upper sequence: AT2G26280.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA14G12570.1 (Glycine max), 3'ss of exon 4
ttcaccggttttattacttcgacgtcatcttatta-acctgtta-tctttctgtcttagtcatgtacgctcaatattctatgttgcttctggttgagcgtagGCACGACAAGCATACCTTGTTGGGAATAAGGCCTTAGCCAAAGAGCTAAGTGTTAAGGGACAGTTGCATAATATGCAAATGAAGGCTGCTCATGGGAAAG
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-tcaacaactgcgctttctacctgtagctgggcaagagatgtaagtccacccatcctaatttttgtagcttga-gtttaattattcataatataataaacagGCACGGCAAGCCTACCTTGTTGGCAACAAGGCCCTTGCAAAGGAGCTAAGTGTTAAGGGGCAACTGCACAACGTGCATATGAAAGCAGCACATGGAAAAGMapped 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|125056342|gb|EL126108.1|EL126108EST: AAGCACGTGACTATGCACGTTTGCGGAATGTGTACTTTGAACAG GCACGACAAGCATACCTTGTTGGGAATAAGGCCTTAGCCAAAGAGCTAAGT
genomic: AAGCACGTGACTATGCACGTTTGCGGAATGTGTACTTTGAACAGgtataatata ... ttgagcgtagGCACGACAAGCATACCTTGTTGGGAATAAGGCCTTAGCCAAAGAGCTAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctgtcttagtcatgtacgctcaatattctatgttgcttctggttgagcgtagGCACGACAAGCATACCTTGTTGGGAATAAGGCCTTAGCCAAAGAGCTAAGTGTTAAGGGACAGTTGCATAATATGCAAATGAAGGCTGCTCATGGGAAAG
aatattctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcaccggttttattacttcgacgtcatcttattaacctgttatctttctgtcttagtcatgtacgctcaatattctatgttgcttctggttgagcgtagGCACGACAAGCATACCTTGTTGGGAATAAGGCCTTAGCCAAAGAGCTAAGTGTTAAGGGACAGTTGCATAATATGCAAATGAAGGCTGCTCATGGGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - ggtttta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgcttc