Sequence
atgc intronic sequence ATGC exonic sequenceTTGGGTATTGGATGCTACTCCTGGTAAAGTTCGTGCAGGAGGAGATGGAGAAGATCATCCACGAGAGCTTATATCATTTCTACGTAAATTGCCAAAAGTGgtaagctaattgaacatgcatgtacaaatattacaagaatgaattttgctggacattacaagaagagtgttattgatttattgcaataagcagtttgaaccacctacatgttcttagaagtcagaagaaccaaaggatctagacagtttaagcttatgaacatcttttctgtttggtttaaaag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G10030.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G10030.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os01g66240.1 (Oryza sativa), 5'ss of exon 9
TTGGGTATTGGATGCTACTCCTGGTAAAGTTCGTGCAGGAGGAGATGGAGAAGATCATCCACGAGAGCTTATATCATTTCTACGTAAATTGCCAAAAGTGgtaagctaattgaacatgcatgtacaaatattacaagaatgaattttgctggacattacaagaagagtgttattgatttattgcaataagcagtttgaaccacctacatgttcttagaagtcagaagaaccaaaggatctagacagtttaagcttatgaacatcttttctgtttggtttaaaag
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ATGGGTTCTTGATGCTACTCCTGGCAAGGTTCGTGCTGGGGGAGATGGCGAAGATCACCCTGCTGAACTTATTGAGTCCCTCAGAAGAATGCCTATGCAGgttggccttttagcgttatatgtacacctat-atgactgcaaaattgagtctgca----gaagtggatgctat--atgtttcaccatatgctttctg------ttttctgaactttaaacccag------------------------------------------------------------
upper sequence: AT4G10030.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G007160_T02 (Zea mays), 5'ss of exon 9
TTGGGTATTGGATGCTACTCCTGGTAAAGTTCGTGCAGGAGGAGATGGAGAAGATCATCCACGAGAGCTTATATCATTTCTACGTAAATTGCCAAAAGTGgtaagctaattgaacatgcatgtacaaatattac--aagaatgaattttgctggac-attacaagaagagtg-ttattgatttattgcaataagcagtttgaaccacctacatgttcttagaagtcagaagaaccaaaggatctagacagtttaagcttatgaacatcttttctgtttggtttaaaag
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ATGGGTTCTTGATGCTACTCCTGGCAAAGTTCGGGCCGGGGGAGATGGTGAAGATCACCCTGCTGAACTTATTGAATTTCTCAGAAGAATGCCTGAGCAGgttggactctaagacatatct-taaaaactttactgagtaatacattttggtgccctgtcacagcttcaggactcatttttattttacattttattgttgaaatttag--------------------------------------------------------------------------------
upper sequence: AT4G10030.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA01G44190.1 (Glycine max), 5'ss of exon 9
TTGGGTATTGGATGCTACTCCTGGTAAAGTTCGTGCAGGAGGAGATGGAGAAGATCATCCACGAGAGCTTATATCATTTCTACGTAAATTGCCAAAAGTGgtaagc---taattgaacatgcatgtacaaatattacaagaatgaattttgctggacattacaagaagagtgttattgatttattgcaataagcagtttgaaccacctacatgttcttagaagtcagaagaaccaaaggatctagacagtttaagcttatgaacatcttttctgtttggtttaaaag
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TTGGATTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGAAGAACTCATATCCTTTCTAAGTACACTGCCAAAGGAGgtagatctttaattgaatcttctcgtct---ttctgagaaaatgaatgt----------------aatggtgatgttaatttgattcaatgtgttgct-----cttgttttggttcttcaactt---------------------------------------------------------------
upper sequence: AT4G10030.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA11G01670.1 (Glycine max), 5'ss of exon 9
TTGGGTATTGGATGCTACTCCTGGTAAAGTTCGTGCAGGAGGAGATGGAGAAGATCATCCACGAGAGCTTATATCATTTCTACGTAAATTGCCAAAAGTGgtaagc---taattgaacatgcatgtacaaatattacaa-gaatgaattttgctggacattacaagaagagtgttattgatttattgcaataagcagtttgaaccacctacatgttcttagaagtcagaagaaccaaaggatctagacagtttaagcttatgaacatcttttctgtttggtttaaaag
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TTGGGTTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGCAGAACTCATATCCTTTCTAAGTACACTGCCAAATGAGgtagatctttaattgaatcttcttgtctttttgagaaaatgaatgcatagtgatgttaatttgatgcaatgtgttgcttttgttttg-gttccttaactta---------------------------------------------------------------------------------------
upper sequence: AT4G10030.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv18s0001g06010.t01 (Vitis vinifera), 5'ss of exon 9
TTGGGTATTGGATGCTACTCCTGGTAAAGTTCGTGCAGGAGGAGATGGAGAAGATCATCCACGAGAGCTTATATCATTTCTACGTAAATTGCCAAAAGTGgtaagctaattgaacatgcatgta---caaatattacaagaatgaattttgctggacattacaagaagagtgttattgatttattgcaataagcagtttgaaccacctacatgttcttagaagtcagaagaaccaaaggatctagacagtttaagcttatgaacatcttttctgtttggtttaaaag
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TTGGGTTCTAGATGCAACTCCTGGGAAAGTTCGTCCTGGTGGAGATGGAGAGGATCATCCAGAGGAACTAATATCTTTCCTTAGTAAAATGCCCAATGAGgtgaatttctggtccattgttgttttcctatttttaatataatgagttccattggagac-ataaacatctaattggcatcttcgtacggtgtatttctttt--------------------------------------------------------------------------------------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|124982808|gb|EL055587.1|EL055587EST: AAGATCATCCACGAGAGCTTATATCATTTCTACGTAAATTGCCAAAAGTG GTCTTGTCAAAGCGCG
genomic: AAGATCATCCACGAGAGCTTATATCATTTCTACGTAAATTGCCAAAAGTGgtaagctaat ... ggtttaaaagGTCTTGTCAAAGCGCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGGGTATTGGATGCTACTCCTGGTAAAGTTCGTGCAGGAGGAGATGGAGAAGATCATCCACGAGAGCTTATATCATTTCTACGTAAATTGCCAAAAGTGgtaagctaattgaacatgcatgtacaaatattacaagaatgaattttgctggacattacaagaagagtgttattgatttattgcaataagcagtttgaaccacctacatgttcttagaagtcagaagaaccaaaggatctagacagtttaagcttatgaacatcttttctgtttggtttaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT