Sequence
atgc intronic sequence ATGC exonic sequencegtatggttataattttgatcacatagataattttcaggtcagatcttgaattagaattatataacatatgatattatcttttgtatcagGGAATACGGTTTAGAGGCATGTCGATTCCTGAATGTCAGAAAATATTACCTTCAGCTGAGTCTGGAGAAGAGCCCTTGCCTGAGAGTCTTCTGTGGCTTC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G60100.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G60100.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA15G42300.1 (Glycine max), 3'ss of exon 6
-------------------------------------------------------------------------gtatggttat-aattttga-------tcacatagataattttcaggtcagatcttgaattagaattatata-acatatgatattatctt-ttgtatc----agGGAATACGGTTTAGAGGCATGTCGATTCCTGAATGTCAGAAAATATTACCTTCAGCTGAGTCTGGAGAAGAGCCCTTGCCTGAGAGTCTTCTGTGGCTTC
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gtatataaattaactcagtcttcacttttcagatatttgtgaactatcaaagtgaattaactcttgcttatgactatttttattaattgagagaatctctgatgtagcatctgttaatgtttactgattagttattactggatagatctctgagatcagcatgttatgtcttatagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCAGGTGCTTTTACTGGTGGGGAGCCTTTACCTGAGGCTGTACTGTGGCTTC
upper sequence: AT3G60100.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G16770.1 (Glycine max), 3'ss of exon 6
------------------------------------------------------------gtatggttataa---ttttgatcacatagataattttcaggtcagatcttgaattagaattatata--------acatatgatattatctt-ttgtatc----agGGAATACGGTTTAGAGGCATGTCGATTCCTGAATGTCAGAAAATATTACCTTCAGCTGAGTCTGGAGAAGAGCCCTTGCCTGAGAGTCTTCTGTGGCTTC
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gtatataaattaactcagtcttcacttttcagatttttgtgactatcaaagtgaattaactcttgcttatgactattttgattaattgatagaatctctgatgtagcttttgtttgttaatatttactgaatggatctctgagatcagcatgttacgtcttatagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCAGGTGCTTTTCCTGGTGGGGAGCCTTTGCCTGAGGCTGTACTGTGGCTTC
upper sequence: AT3G60100.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S37_33V6.2 (Physcomitrella patens), 3'ss of exon 5
---------gtatggttataattttgatcac--atagataattttcaggtcagatcttgaattagaattatataacatatgatattatcttttgtatcagGGAATACGGTTTAGAGGCATGTCGATTCCTGAATGTCAGAAAATATTACCTTCAGCTGAGTCTGGAGAAGAGCCCTTGCCTGAGAGTCTTCTGTGGCTTC
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ggttttttcccaaaagtagatcctgggaagctaatggttgggcattttgtaggactgagcgtttcacccgaataattgatctgtatacttcttgttgcagGGCATTCGCTTCAGAGGCATGTCAATTCCTGAATGTCAGAAAAAGCTTCCAGCAGCTATACCTGGTGGTGAACCGATCCCCGAAGGCTTTTTGTGGCTCCMapped 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|86074093|gb|DR369850.1|DR369850EST: GAGGGATGACTGGATTACTCTGGGAAACCTCATTGCTTGATGCAGATGAG GGAATACGGTTTAGAGG
genomic: GAGGGATGACTGGATTACTCTGGGAAACCTCATTGCTTGATGCAGATGAGgtatggttat ... tttgtatcagGGAATACGGTTTAGAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caggtcagatcttgaattagaattatataacatatgatattatcttttgtatcagGGAATACGGTTTAGAGGCATGTCGATTCCTGAATGTCAGAAAATATTACCTTCAGCTGAGTCTGGAGAAGAGCCCTTGCCTGAGAGTCTTCTGTGGCTTC
atataac putative branch site (score: 3)
ttatctttt putative PPT
aattagaattatataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggttataattttgatcacatagataattttcaggtcagatcttgaattagaattatataacatatgatattatcttttgtatcagGGAATACGGTTTAGAGGCATGTCGATTCCTGAATGTCAGAAAATATTACCTTCAGCTGAGTCTGGAGAAGAGCCCTTGCCTGAGAGTCTTCTGTGGCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA