Sequence
atgc intronic sequence ATGC exonic sequencegtcatcttcttttctttcaccaatccattttcctcttgtttttttttttttgttttgagttcttacttttgtgattctttactgatttcttcttgttgatctgggaatttttttttgcagATTGTGGATCCTAAGTTAGCTTCTTATGGCGTTGAGAGTCCTATCTATGCTGTTGTACAGCTGGCTCAGACCACAATGCGTAGTGAGCTTGGTAAGATCA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G27585.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G27585.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA04G40420.1 (Glycine max), 3'ss of exon 2
gtcatcttcttttctttcaccaatccattttcctcttgtttttttttttttgttttgagttcttacttttgtgattc-tttactgatttcttcttgttgatctgggaatttttttttgcagATTGTGGATCCTAAGTTAGCTTCTTATGGCGTTGAGAGTCCTATCTATGCTGTTGTACAGCTGGCTCAGACCACAATGCGTAGTGAGCTTGGTAAGATCA
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-----------ttctttttttattt--tttttctccaattgtttattaagaactttgtcaaaatagggctatgttttatttatttattattgttttttattttgggagtt--------cagATTGTGGATCCTAAGCTGGCGTCTTATGGGGTGGAGAATCCCATTTATGCTGTGATTCAGCTGGCACAGACAACAATGCGTAGTGAGCTTGGTAAGATTA
upper sequence: AT4G27585.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G14340.1 (Glycine max), 3'ss of exon 2
gtcatcttcttttctttcaccaatccattttcctcttgtttttttttttttgttttgagttcttacttttgtgattctttactgatttcttcttgttgatctgggaatttttttttgcagATTGTGGATCCTAAGTTAGCTTCTTATGGCGTTGAGAGTCCTATCTATGCTGTTGTACAGCTGGCTCAGACCACAATGCGTAGTGAGCTTGGTAAGATCA
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---------gattcatttaacttttttttcctctcctgtaagtgtttattaagaactttgtctaaatatggctatgttttatttattattttttgtt---ttgggagt--------gcagATTGTGGATCCTAAGCTGGCATCGTATGGGGTGGAGAATCCCATTTATGCTGTCATTCAGCTGGCACAGACGACAATGCGTAGCGAGCTTGGTAAGATTA
upper sequence: AT4G27585.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv09s0002g01630.t01 (Vitis vinifera), 3'ss of exon 2
gtcatcttcttttctttcaccaatccattttcctcttgtttttttttttttgttttgagttcttacttttgtgattctttactgatttcttct----tgttgatctgggaatttttttttgcagATTGTGGATCCTAAGTTAGCTTCTTATGGCGTTGAGAGTCCTATCTATGCTGTTGTACAGCTGGCTCAGACCACAATGCGTAGTGAGCTTGGTAAGATCA
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---------------------------------------gtattcagcttgaatacggttttttgttggtgtgagtatgtagttggttttaatggggtggtgagttattacctgttgcctgcagATTGTGGATCCTAAATTGGCCTCCTATGGTGTGGAGAATCCTATTTATGCGGTTATTCAGCTTGCACAGACAACAATGCGTAGTGAGCTTGGGAAGATTAMapped 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|125300362|gb|EL314447.1|EL314447EST: TTACTAAAGACAACGTTAGTATCCACATCGATGGTGTTCTCTACGTTAAG ATTGTGGATCCTAAGTTAGCTTCTTATGGCGTTGAGAGT
genomic: TTACTAAAGACAACGTTAGTATCCACATCGATGGTGTTCTCTACGTTAAGgtcatcttct ... ttttttgcagATTGTGGATCCTAAGTTAGCTTCTTATGGCGTTGAGAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttgtgattctttactgatttcttcttgttgatctgggaatttttttttgcagATTGTGGATCCTAAGTTAGCTTCTTATGGCGTTGAGAGTCCTATCTATGCTGTTGTACAGCTGGCTCAGACCACAATGCGTAGTGAGCTTGGTAAGATCA
tttttttttgc CT-rich tract
aatttttttttgca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatcttcttttctttcaccaatccattttcctcttgtttttttttttttgttttgagttcttacttttgtgattctttactgatttcttcttgttgatctgggaatttttttttgcagATTGTGGATCCTAAGTTAGCTTCTTATGGCGTTGAGAGTCCTATCTATGCTGTTGTACAGCTGGCTCAGACCACAATGCGTAGTGAGCTTGGTAAGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA