Sequence
atgc intronic sequence ATGC exonic sequencegtaactactgttggcctaggttgtaatttctttttcttgggtgagtaagatcaaactatctttcatcttctaagtgaaacctttcatttactttgtttgaacagGAAGTGCCTGAGAACAAGAGGCGTGTATCAATCGTAAAAGGCGTCGTCATAGCAAGGCGTAATGCTGGTCTCAACTCAACATTTAGAATTAGAAGGCTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G24240.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G24240.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G34520.1 (Glycine max), 3'ss of exon 3
gtaactactgttggcctaggttgtaatttctttttcttgggtgagtaag-atcaaactatctttcatcttctaagtgaaacctttcatttactttgtttga----acagGAAGTGCCTGAGAACAAGAGGCGTGTATCAATCGTAAAAGGCGTCGTCATAGCAAGGCGTAATGCTGGTCTCAACTCAACATTTAGAATTAGAAGGCTTG
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------------------gtatggaatttattttttattcatatttgtttgtttggtttttgtttgtgatagtaatttgatcttttgtttactaaatctgatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATTGCAAGGCGTAATGCTGGACTCAATACTACATTCAGAATTAGGAGGCAGG
upper sequence: AT1G24240.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G08770.1 (Glycine max), 3'ss of exon 3
------gtaactactgttggcctaggttgtaatttctttttcttgggtgagtaagatcaaactatctttcatcttctaagtgaaacctttcatttac-tttgtttgaacagGAAGTGCCTGAGAACAAGAGGCGTGTATCAATCGTAAAAGGCGTCGTCATAGCAAGGCGTAATGCTGGTCTCAACTCAACATTTAGAATTAGAAGGCTTG
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ggtatggaatttattttctattcatatt-tgtttgcttggtttttgtttgtgatagtaatatgatcttttgttttttg----------tttactaacatctgatataacaGGAAGTACCTGAAAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATTGCAAGACGTAATGCTGGACTCAATACTACATTCAGAATTAGGAGGCAG-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|116420245|gb|EG462837.1|EG462837EST: TTAGAGAGATTCCAGAGATAAAGCCTGGTTACATTGTGCAGCTAAAAGTG GAAGTACCTGAGAACAAGAGGCGTGTATCAATCGTAAAAGGCGTCGTCATA
genomic: TTAGAGAGATTCCAGAGATAAAGCCTGGTTACATTGTGCAGCTAAAAGTGgtaactactg ... gtttgaacagGAAGTGCCTGAGAACAAGAGGCGTGTATCAATCGTAAAAGGCGTCGTCATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcaaactatctttcatcttctaagtgaaacctttcatttactttgtttgaacagGAAGTGCCTGAGAACAAGAGGCGTGTATCAATCGTAAAAGGCGTCGTCATAGCAAGGCGTAATGCTGGTCTCAACTCAACATTTAGAATTAGAAGGCTTG
ctttgttt CT-rich tract
tttcattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactactgttggcctaggttgtaatttctttttcttgggtgagtaagatcaaactatctttcatcttctaagtgaaacctttcatttactttgtttgaacagGAAGTGCCTGAGAACAAGAGGCGTGTATCAATCGTAAAAGGCGTCGTCATAGCAAGGCGTAATGCTGGTCTCAACTCAACATTTAGAATTAGAAGGCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG