Sequence
atgc intronic sequence ATGC exonic sequenceACTTGGGGATCTGTTCGAGCTAAAATGGGACGCCAAGAACCTTTTGAACTTAAATACGTTGCTATTGGAAATGAAGATTGTGGGAAAACTTACTACAGAGgttttgcatttctctatgatcacatcttgacttagatttttgttgagcatctttgacactaaatgagattacaactttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G10740.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os12g03470.5 (Oryza sativa), 5'ss of exon 11
ACTTGGGGATCTGTTCGAGCTAAAATGGGACGCCAAGAACCTTTTGAACTTAAATACGTTGCTATTGGAAATGAAGATTGTGGGAAAACTTACTACAGAGgttttgcatttctctatgatcacatcttg---acttagat-ttttgttgagcatctttgaca-------ctaaatgagattacaactttacag-------
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ACATGGGGTTCTGTTAGAGCTGCAATGGGGCACCCTGAACCATTCCCTGTCAAATACGTTGCAATTGGAAATGAAGATTGTGGGAAAAAATTTTACCGCGgtatattcctcatccaatttcatattttatccacttgaccatataactgcataagttgaagaggcttgtctggataattaagaaggtgtatgatcgagga
upper sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os11g03730.3 (Oryza sativa), 5'ss of exon 11
ACTTGGGGATCTGTTCGAGCTAAAATGGGACGCCAAGAACCTTTTGAACTTAAATACGTTGCTATTGGAAATGAAGATTGTGGGAAAACTTACTACAGAGgt----------tttgcatttctctatgatcacatcttgacttagattttt--gttgagcatctttgac----actaaatgagat-tacaactttacag-
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ACATGGGGTTCTGTTAGAGCTGCAATGGGGCACCCCGAACCATTCCCTGTCAAATACGTCGCAATTGGAAATGAAGATTGTGGGAAAAAATTTTACCGCGgtgcattcctcaattactttcttattttatcacttcaccatataactgcataaattgaagagccttgtctggaataaattaaggtgtatgatcgaataaa
upper sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os12g03530.1 (Oryza sativa), 5'ss of exon 9
ACTTGGGGATCTGTTCGAGCTAAAATGGGACGCCAAGAACCTTTTGAACTTAAATACGTTGCTATTGGAAATGAAGATTGTGGGAAAACTTACTACAGAGgt---tttgcatttctc----tatgatcacatcttgacttagatttttgttga-gcatctttgacactaaatgagattacaactttacag----------
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ACATGGGGCTCTGTTAGATCTGCAATGGGGCATCCCGAACGGTTCCCACTGAAGTATGTTGCTATTGGAAATGAAGATTGTGGGAAGGAATTTTACCGAGgtatatttttattaatcagaatttgacatactactgatcccatttgttgtcaatgccatagttgttttccttaggttggtacatctataggctgaaatgg
upper sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os11g03780.1 (Oryza sativa), 5'ss of exon 11
ACTTGGGGATCTGTTCGAGCTAAAATGGGACGCCAAGAACCTTTTGAACTTAAATACGTTGCTATTGGAAATGAAGATTGTGGGAAAACTTACTACAGAGgttttgcatttctctatgatcacatcttg----acttagatttttgttgagcatctttgacactaaatgagattacaactttacag-------------------
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ACATGGGGTTCTGTTAGAGCTGCAATGGGGCATCCAGAACGGTTCCCACTGAAGTATGTTGCTATTGGAAATGAAGATTGTGACAAGGGATTTTACCGAGgtat---atttttat-taaccagagcttgtcatgctaatgatcccatttgttgtcaatgcca-tagttgttctcattagttttcaatagacacatctataggcta
upper sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G077299_T03 (Zea mays), 5'ss of exon 10
ACTTGGGGATCTGTTCGAGCTAAAATGGGACGCCAAGAACCTTTTGAACTTAAATACGTTGCTATTGGAAATGAAGATTGTGGGAAAA---CTTACTACAG-AGgttttgcatttctctatgatcacatcttgacttagatttttgttgagcat--ctttgacactaaatgagattacaa-------ctttacag-----
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ACATGGGGCTCTGTTAGGGCTGCAATGGGCCACCCTGAACCATTCCCAGTGAAATATGTTGCAATAGGAAATGAAGATTGTGGGAAAAAATTTTACCGCGgtaaatttaccaactacattttgttacatcctttttagagtataagtggaaaagcacttttgcacaagggcagtttctaaggaacctctcttcactagca
upper sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA03G27490.1 (Glycine max), 5'ss of exon 10
---------------------ACTTGGGGATCTGTTCGAGCTAAAATGGGACGCCAAGAACCTTTTGAACTTAAATACGTTGCTATTGGAAATGAAGATTGTGGGAAAACTTACTACAGAGgttttgcatttctctatgatcacatcttgacttagatttttgttgagcatctttgacactaaatgagattacaac-tttacag
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GCCAGAGGTGAGGCTACTTCAAAATGGGGTTCCCTTAGAGCATCTATGGGGCACCCAAAGCCTTTTGACCTAAAATATGTTGCTATTGGAAATGAAGATTgtgggaagacaaactaccaaggcat-gctctcctttttctttttccttttttaagtatttacattgagtgactttt---ttgagtgaacacaaagtatttacta
upper sequence: AT3G10740.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA19G30470.1 (Glycine max), 5'ss of exon 10
ACTTGGGGATCTGTTCGAGCTAAAATGGGACGCCAAGAACCTTTTGAACTTAAATACGTTGCTATTGGAAATGAAGATTGTGGGAAAACTTACTACAGAGgttttgcatttctctatgatcacatcttgacttagatttttgttgagcatctttgacactaaatgagattacaactttacag
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------------CTTAGAGCATCTATGGGGCACCCAAAGCCTTTTGACCTAAAAAATGTTGCTATTGGAAATGAAGATTGTGGAAAGACAAACTACCAAGGCATG----CTCTCT-------Cgttttcttttatcctttt-ttaagtattt---acactgagtgacttt-----tttgaagMapped 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|125216056|gb|EL230139.1|EL230139EST: TATTGGAAATGAAGATTGTGGG-AAACTTACTACAGAG GAAACTACATTGTGTTCTATGATGCTATCAAGAAAGCCTATCCAGATAT
genomic: TATTGGAAATGAAGATTGTGGGAAAACTTACTACAGAGgttttgcatt ... aactttacagGAAACTACATTGTGTTCTATGATGCTATCAAGAAAGCCTATCCAGATAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTTGGGGATCTGTTCGAGCTAAAATGGGACGCCAAGAACCTTTTGAACTTAAATACGTTGCTATTGGAAATGAAGATTGTGGGAAAACTTACTACAGAGgttttgcatttctctatgatcacatcttgacttagatttttgttgagcatctttgacactaaatgagattacaactttacag
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