Sequence
atgc intronic sequence ATGC exonic sequenceTGAGAAACCTTTCCTTGAAGGGACCTCTGAATTTTATGCCGCTGAAGGAATGAAATACATGCAGCAGTCTGACGTTCCGGAGTACCTGAAGCATGTTGAGgtgccttgcatgacttcatatagtttccttatgattagctgcactacaggttaatagtctttctaaggtttctactggtgattggtgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G46210.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G46210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G29010.1 (Glycine max), 5'ss of exon 4
TGAGAAACCTTTCCTTGAAGGGACCTCTGAATTTTATGCCGCTGAAGGAATGAAATACATGCAGCAGTCTGACGTTCCGGAGTACCTGAAGCATGTTGAGgtgccttgcatgacttcatatagtttcct-tatgattagctgcactacaggttaatagtctttcta-aggtttctactggtgattggtg-cag--------------------------------------------------------------------------------------------------------
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TGAGAAGCCATTCCTTGAATGCACATCTGAATTTTATGCTGCTGAAGGTGTGAAATACATGCAGCAATCAGATGTTCCAGATTACTTGAAGCATGTGGAGgtgttttcttttccttaacccattgtattatcttattgtctttagt-tattttggtaattctttaataaatggattatgtcattcaatgtcagttttatctgacactctgacaataaaagttatctttctttgtctatctttcccttgtccacattgtatactcactgcaggtatttttgggtactcatttctgcag
upper sequence: AT5G46210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G10030.1 (Glycine max), 5'ss of exon 4
TGAGAAACCTTTCCTTGAAGGGACCTCTGAATTTTATGCCGCTGAAGGAATGAAATACATGCAGCAGTCTGACGTTCCGGAGTACCTGAAGCATGTTGAGgtgccttgcatgacttcatatagt-ttccttatga--ttagctgcactacaggttaatagtctttctaaggtttctactg-gtgatt--ggtgcag-----------------------------------------------------------------------------------------------------
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TGAGAAGCCATTCCTTGAATGCACATCTGAATTTTATGCTGCTGAAGGCGTGAAATACATGCAGCAATCAGATGTTCCAGATTACTTGAAGCATGTGGAGgtgttttcttttccttaacccattgtattttatcatattggcttcagt-tattttggtgattctt-taataaatggattgtgtcattcaatttcagttttatctgacactctgactgtaaaagttatctttgtctatccttcccttgtccacattgtatacttactgcagggattttttgggtactcatttctgcag
upper sequence: AT5G46210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G27240.1 (Glycine max), 5'ss of exon 4
TGAGAAACCTTTCCTTGAAGGGACCTCTGAATTTTATGCCGCTGAAGGAATGAAATACATGCAGCAGTCTGACGTTCCGGAGTACCTGAAGCATGTTGAGgtgccttgcatgacttcatatagtttcct-tatgattagctgcact-----acaggttaatagtct--ttctaaggtttcta-ctggtgattggtgcag-
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TGAGAAGCCATTCCTTGAGTGCACATCCGAATTTTATGCTGCTGAAGGTATGAAATACATGCAGCAATCAGATGCTCCAGATTACTTGAAGCATGTTGAGgtgcttcttttcccttacttttgtgtattatagttttagctttaatcattgacattcccatatgctgcttttgtattttttaacaaatggatcatgccaa
upper sequence: AT5G46210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G10180.1 (Glycine max), 5'ss of exon 4
TGAGAAACCTTTCCTTGAAGGGACCTCTGAATTTTATGCCGCTGAAGGAATGAAATACATGCAGCAGTCTGACGTTCCGGAGTACCTGAAGCATGTTGAGgtgccttgcatgacttcatatagtttcct-tatgattagctgcact-----acaggttaatagtct---ttctaaggtttctactggtgattggtgcag-
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TGAGAAGCCATTCCTTGAGTGCACATCCGAATTTTATGCGGCGGAAGTTATGAAATACATGCAGCAATCAGATGCTCCAGATTACTTGAAGCATGTTGAGgtgcttcttttccctttcttttgtgtattataattttagctttaatcattgacattcctatgtgctgcttttgtaacttttaacaaatggatcatgccaa
upper sequence: AT5G46210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv10s0003g03710.t01 (Vitis vinifera), 5'ss of exon 4
TGAGAAACCTTTCCTTGAAGGGACCTCTGAATTTTATGCCGCTGAAGGAATGAAATACATGCAGCAGTCTGACGTTCCGGAGTACCTGAAGCATGTTGAGgtgccttgcatgacttcatatagtttccttatgattagctgcactacaggttaatagtctttctaaggtttcta-ctggtgattggtgcag-------------------------------------------------------------------------------------
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TGAGAAGCCATTCCTCGAGTGTACGTCTGAATTTTATGCTGCTGAAGGCATGAAATACATGCAGCAATCAGATGTTCCGGATTACTTGAAACATGTGGAGgtgcaatttgttttttcttcta--ctactataagtgatattctctgctctttctcaccttttattgtatttctagtttattggctgtgcaaatcacatttatattctagctgacagaatgttcattcacaatttatgttcacgtctagaagatatgagggtgatgctttcttgcagMapped 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|124867762|gb|EH952199.1|EH952199EST: ATGCAGCAGTCTGACGTTCCGGAGTACCTGAAGCATGTTGAG GGAAGGTTGCATGAA
genomic: ATGCAGCAGTCTGACGTTCCGGAGTACCTGAAGCATGTTGAGgtgccttgca ... attggtgcagGGAAGGTTGCATGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAGAAACCTTTCCTTGAAGGGACCTCTGAATTTTATGCCGCTGAAGGAATGAAATACATGCAGCAGTCTGACGTTCCGGAGTACCTGAAGCATGTTGAGgtgccttgcatgacttcatatagtttccttatgattagctgcactacaggttaatagtctttctaaggtttctactggtgattggtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC