Sequence
atgc intronic sequence ATGC exonic sequencegtaagtctttgttcgattcttgcttcatatcatccttttgattctaaccaaatgcgagataacaaaactaacttgattagtatctttccagGCACATTATCAGCTGATGAATGGGAAGCTGCATATTTATACCTCTCTTTTGTCTTGAGAAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G20650.2 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G20650.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA08G22390.1 (Glycine max), 3'ss of exon 11
----------------------------------------------gtaagtctttgttcgattcttgct-tcatatca----tccttttga----ttctaaccaaatgcgag----ataacaaaactaacttgattagtatctttccagGCACATTATCAGCTGATGAATGGGAAGCTGCATATTTATACCTCTCTTTTGTCTTGAGAAAG
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gtaaccctttgtgcctactctatctttttaattcccccaaacttcattgaatattattttggctctctttgtcatgtgaaagcccattttcacctctcctggttaaggggaagcctagtaatgtagtacgtgtgtatatttctatatcagGCACACTCTCAGCTGATGAATGGGAGGCAGCATATTTATACATGTCATTTGTATTGAGAAAG
upper sequence: AT3G20650.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA06G41190.1 (Glycine max), 3'ss of exon 11
------------------------------------------------------gtaagtctttgttcgattcttg---------cttcatatcatccttttgattctaaccaaatgcgagataacaaaactaacttgattagta-tctttccagGCACATTATCAGCTGATGAATGGGAAGCTGCATATTTATACCTCTCTTTTGTCTTGAGAAAG
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gtaacactttgtgcccagtctctatcttttcaatttcaatttaatttcattgaactatttttttccctgtcttttgtatgtgaaaccccacctttacctctcctgattaacagaaaacctagtaacatagtgcatgtatgtattgctattgtcagGTACACTCTCTGCTGATGAATGGGAGGCAGCATATTTATACATGTCATTTGTATTGAGAAAGMapped 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|19741823|gb|AU227176.1|AU227176EST: CGAACTCATGAGAAGGCTTGGTGCTTTGGGTGATGGTAGCAATGATCAGA GCACATTATCAGCTGATGAATGGGAAGCTGCATATTTATACCTCTCTTTTG
genomic: CGAACTCATGAGAAGGCTTGGTGCTTTGGGTGATGGTAGCAATGATCAGAgtaagtcttt ... atctttccagGCACATTATCAGCTGATGAATGGGAAGCTGCATATTTATACCTCTCTTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgattctaaccaaatgcgagataacaaaactaacttgattagtatctttccagGCACATTATCAGCTGATGAATGGGAAGCTGCATATTTATACCTCTCTTTTGTCTTGAGAAAG
tatctttcc CT-rich tract
ataacaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtctttgttcgattcttgcttcatatcatccttttgattctaaccaaatgcgagataacaaaactaacttgattagtatctttccagGCACATTATCAGCTGATGAATGGGAAGCTGCATATTTATACCTCTCTTTTGTCTTGAGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC