Sequence
atgc intronic sequence ATGC exonic sequenceAGTACTGAAGGGTCTTCTAGAAGACTGTTTTATCTTGCACTTCCACCGTCTGTTTATCCTTCTGTATGCAAGATGATCAAGACGTGCTGCATGAACAAATgtgagtccctttcagctgtggaatttattacttggataaaatgttaacctgcttgagcctaggacacgtatttcatctacgagttagtcttcattttagtagttagcttagaaatacaagttttagacgctttgaagttcatgtaaactatattgtctcataatttccag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G40760.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G40760.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA19G24250.1 (Glycine max), 5'ss of exon 5
AGTACTGAAGGGTCTTCTAGAAGACTGTTTTATCTTGCACTTCCACCGTCTGTTTATCCTTCTGTATGCAAGATGATCAAGACGTGCTGCATGAACAAATgtgagtccctttcagctgtggaatttattacttggataaaatgttaacctgcttgagcctaggacacgtatttcatctacgagttagtcttcattttagtagttagcttagaaatacaagttttagacgctttgaagttcatgtaaactatattgtctcataatttccag
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AGTGTTGAGGGTTTATCTCGGAGGCTTTTCTATCTTGCTCTTCCACCTTCAGTATATCCATCTGTTTGCAAGATGATCAAGACTTGTTGCATGAATAAATgtaagatgctat---------aatatatggttttgata-----tttacctttttga---ttgcaaatgttttaaaaggaccagtagctttttgttgagggag---ggtgggggatacaaa--------------------------------------------------
upper sequence: AT5G40760.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA19G22690.1 (Glycine max), 5'ss of exon 5
AGTACTGAAGGGTCTTCTAGAAGACTGTTTTATCTTGCACTTCCACCGTCTGTTTATCCTTCTGTATGCAAGATGATCAAGACGTGCTGCATGAACAAATgtgagtccctttcagctgtggaatttattacttggataaaatgttaacctgcttgagcctaggacacgtatttcatctacgagttagtcttcattttagtagttagcttagaaatacaagttttagacgctttgaagttcatgtaaactatattgtctcataatttccag
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AGTACTGAGGGTTCTTCTCGAAGGCTTTTCTATCTTGCCCTTCCTCCTTCAGTATATCCATCAGTTTGCAAGATGATCAAGACTTGTTGCATGAATAAATgtaaga----ttcagtc-----atccattgttttaataaaacatttggttactaatgttttat-tagaactcttagctggggaaaaataacaaaccttgta--tgccatagc----------------------------------------------------------
upper sequence: AT5G40760.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G06850.1 (Glycine max), 5'ss of exon 5
AGTACTGAAGGGTCTTCTAGAAGACTGTTTTATCTTGCACTTCCACCGTCTGTTTATCCTTCTGTATGCAAGATGATCAAGACGTGCTGCATGAACAAATgtgagtccctttcagctgtggaatttattacttggataaaatgttaacctgcttgagcctaggacacgtatttcatctacgagttagtcttcattttagtagttagcttagaaatacaagttttagacgctttgaagttcatgtaaactatattgtctcataatttccag
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AGTGTTGAGGGTTTATCTCGGAGGCTTTTCTATCTTGCTCTTCCACCTTCAGTATATCCATCAGTTTGCAAGATGATCAAGACTTGTTGCATGAATAAATgtaagatgctataatatatggttttgattgc-------aaatgtt-------tcaaa---aggacaaatagctttttgttgagggagggtgggagata-tgaacagcgacacagtgaa----------------------------------------------------
upper sequence: AT5G40760.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 5'ss of exon 5
AGTACTGAAGGGTCTTCTAGAAGACTGTTTTATCTTGCACTTCCACCGTCTGTTTATCCTTCTGTATGCAAGATGATCAAGACGTGCTGCATGAACAAATgtgagtccctttcagctg-tggaatttattacttggataaaatgttaacctgcttgagcctaggacacgtatttcatctacga--gttagtcttcattttagtagttagcttagaaatacaagttttagacgctttgaagttcatgtaaactatattgtctcataatttccag
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TCTCAAGAAGGATCATCACGGAGACTCTTTTATCTTGCACTTCCTCCATCAGTATATCCGTCTGTCTGCAGGATGATCAAGCTTTGTTGCATGAATAAATgtaagtttcctttaccagattggttctgtgagtcagtatctatgcattcaggcttaagtatgatttggttatttatcttgtcaaggtgcactttcaattt-------------------------------------------------------------------------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|164171331|gb|ES158769.1|ES158769EST: GCATGAACAAAT CTGATCTTGGTGGATGGACACGGATTGTTGTGGAGAAGCCATTTGGCAAGG
genomic: GCATGAACAAATgtgagtccct ... taatttccagCTGATCTTGGTGGATGGACACGGATTGTTGTGGAGAAGCCATTTGGCAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTACTGAAGGGTCTTCTAGAAGACTGTTTTATCTTGCACTTCCACCGTCTGTTTATCCTTCTGTATGCAAGATGATCAAGACGTGCTGCATGAACAAATgtgagtccctttcagctgtggaatttattacttggataaaatgttaacctgcttgagcctaggacacgtatttcatctacgagttagtcttcattttagtagttagcttagaaatacaagttttagacgctttgaagttcatgtaaactatattgtctcataatttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC