Sequence
atgc intronic sequence ATGC exonic sequenceGGAAAGCGTGGGATAGAGAAGCAGCCATTTCATCTTCCTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAGgtaaaagttattctctatcaatataaggtgcaagtcgctaaatgcttctactgtcagctaattcttgtgtggttcttatgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G21660.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G132060_T01 (Zea mays), 5'ss of exon 5
GGAAAGCGTGGGATAGAGAAGCAGCCATTTCATCTTCCTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAGgtaaaagttattctctatcaatataaggtgcaagtcgctaaatgcttctactgtcagctaattcttgtgtggttcttatgtag----------------------------------------------------------------
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GGGAAGAGAGGTATTGAGAAACAGCCTTTCCAGCTTCCTGACTTCATTGCTGCAACTGGAATAGAAAAGATAAGACAGgtaacttgcttctggtatctcagtaatctacctctccctctct-ctgcttatccaatttttttcttggtggaacactgcagaactattgatatcagtttggtggcataaacatgaaccgcctgattgatttctaaatgtatacacag
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G121354_T01 (Zea mays), 5'ss of exon 2
GGAAAGCGTGGGATAGAGAAGCAGCCATTTCATCTTCCTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAGgtaaaagttattctctatcaatataaggtgcaagtcgctaaatgcttctactgtcagctaattcttgtgtggttcttatgtag------------------------------------------------------------
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GGGAAGAGAGGTATTGAGAAGCAGCCTTTCCAGCTTCCTGACTTTATAGCTGCAACTGGAATAGAAAAGATAAGACAGgtaacttgcttcttgtatctcagtaatttacttctttctctgcttattcatttttttttctttgtagagcgctgcggaactattcattccagtttggtgccatgatcatgagctacctaattgatttctaaatgtgtacacag
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA15G07760.1 (Glycine max), 5'ss of exon 6
GGAAAGCGTGGGATAGAGAAGCAGCCATTTCATCTTCCTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAGgtaa-aagttattctctatcaatataaggtgcaagtcgctaaatgcttctactgtcagctaattcttgtgtgg-ttcttatgtag---------------
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GGTAAACGAGGTATAGAGAAACCAGCCTTTCAGCTTCCTGATTTCATTGCTGCCACTGGAATTGAGAAAATCAGACAGgtaatataatcttttgcatatgtttttcaagaaattatctgtttgcatatgttatgattttaatttggagtgacttcctacaaaaataaattaaatattc
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA13G31550.2 (Glycine max), 5'ss of exon 6
GGAAAGCGTGGGATAGAGAAGCAGCCATTTCATCTTCCTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAGgtaa-aagttattctctatcaatataaggtgcaagtcgctaaatgcttctactgtcagctaattcttgtgtgg-ttcttatgtag---------------
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GGTAAACGAGGTATAGAGAAACCACCCTTTCAGCTTCCTGATTTCATTGCTGCCACTGGAATTGAGAAAATCAGACAGgtaatatgatcttttgcgtatgtttttcaagaaataatctgtttgcatgcgttatgattttaatttggagtgacttcctacaaaaataaattaaatattc
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA07G31350.1 (Glycine max), 5'ss of exon 3
---------------GGAAAGCGTGGGATAGAGAAGCAGCCATTTCATCTTCCTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAGgtaaaa-gttattctctatcaatataaggtgcaagtcg----ctaaatgcttctact-------gtcagctaattctt---gtgtggttcttatgtag--
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TTATGGTTTTTGCTGGGGAAAAGAGGTATAGAGAAACCACCCTTTCAGCTTCCTGATTTCATTGCTGCCACAGGAATTGAGAAAATCAGACAGgtaatatgatcttacctgtttgcatctgttctaactctttgtctaagtgacccaccttaaaaaaataaagtaatatttgaagtaaaatgtttatgtgatt
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA13G25110.2 (Glycine max), 5'ss of exon 6
GGAAAGCGTGGGATAGAGAAGCAGCCATTTCATCTTCCTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAGgtaa-aagttattctctatcaatataaggtgcaagtcg----ctaaatgcttctactg------tcagctaattcttgt-gtggttcttatgtag-----
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GGTAAAAGAGGTATAGAGAAACTTCCCTTTCAGCTTCCTGATTTCATTGCTGCCACAGGAATTGAGAAAATCAGACAGgtagtatgatcttacctgtttgcatctattctaattctttgtctaactgacccacctaaaaaaataaagtaatatttgaagtaaaatgtttgtgatattt
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S505_13V6.1 (Physcomitrella patens), 5'ss of exon 6
GGAAAGCGTGGGATAGAGAAGCAGCCATTTCATCTTCCTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAGgtaaaagttattctctatcaatataaggtg-----caagtcgctaaatgcttctactgtcagctaattcttgtgt--ggttcttatgtag----------
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GGGAAGCGTGGTATAGAGAAGCAGCCCTTTCAGCTTCCCGATTTTATTGCAGCAACTGGTATTGAAAAAATAAGACAGgtgagaagaatcgtgtataggttaacgttattacactattcgttgaatattgcctctctttcacgtttgcagtactgggtcatgctagagggtagcgtacMapped 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|124728292|gb|EH819694.1|EH819694EST: CTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAG GCTTACATTGAGAAAGAAGATGGTAAGAAATTG
genomic: CTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAGgtaaaagtta ... tcttatgtagGCTTACATTGAGAAAGAAGATGGTAAGAAATTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAAAGCGTGGGATAGAGAAGCAGCCATTTCATCTTCCTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAGgtaaaagttattctctatcaatataaggtgcaagtcgctaaatgcttctactgtcagctaattcttgtgtggttcttatgtag
- - - - - - - - - - - - - - - - - - - - - - - TGCTGC