Sequence
atgc intronic sequence ATGC exonic sequence...tttctgcaagctctttaaattataattgcccaataatcttttgctgagaaaagacaattttggaaacactaattcacatcttattcttttcaccctgcagGCAACTAGAAACTATGAAAAAGCTGTTCAACTCAATTGGAACAGTCCCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g02520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G31600.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------------------------------------------------tttctgcaagctctttaaattataattgcccaataatcttttgctgagaaaagacaatt-ttggaaacactaattcacatcttatt---cttttcaccctgcagGCAACTAGAAACTATGAAAAAGCTGTTCAACTCAATTGGAACAGTCCCCAG
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gtcattaaaaataaatgctgccttttattaatggtttcatgcatcttctggataatacttgataaagaactgaattcatactgaacttgaatggaagaacttttcacatttttggttatagttgtcaagtgttggttgatagagagaggcttatcatcacacaatctaatttttgttaaatttaaccttttttttcccagGCAACAAGCAACTATGAAAAAGCAGTTCAACTTAACTGGAACAGTCCTCAG
upper sequence: Vv02s0025g02520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G35990.1 (Glycine max), 3'ss of exon 5
----------------------------------------------------------------------------------------------------tttctgcaagctctttaaattataattgcccaataatcttttgctgagaaaagacaattttggaaacactaattcacatcttattcttttcaccctgcagGCAACTAGAAACTATGAAAAAGCTGTTCAACTCAATTGGAACAGTCCCCAG
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gtcagtaaaaataaatgctgccttttattaatggtttcatgcatattttggatagtgctttataaagaattgaattcatactgaacttgaatggaagaaattttcaca----tttttggttatagttgtcaagtgttggttgatagagatcatcacacactctattttttg--ttgaatttaaccttttttttcccccagGCAACACGGAACTATGAAAAAGCAGTTCAACTTAACTGGAACAGTCCTCAG
upper sequence: Vv02s0025g02520.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G41950.1 (Arabidopsis thaliana), 3'ss of exon 5
-------tttctgcaagctctttaaattataattgcccaataat-cttttgctgagaa--aagacaattttgg---------aaacactaattc----acatcttattcttttcaccctg----cagGCAACTAGAAACTATGAAAAAGCTGTTCAACTCAATTGGAACAGTCCCCAG
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gtaagtagctttgcatgttatgaggactgacctgaccttatcctgctaattgtgaaaactaaaattatcgtagtttgatcttaacttctaattctaaagaagtatgtgtttgacattctgatttcagGCGGCTGATAACTATGAAAAAGCTGTCCAGCTCAATTGGAACAGTTCCCAGMapped 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|161720966|gb|FC070346.1|FC070346EST: GGGCAAAAATGCGGGGTCGTACTAAGGAGGCTGAAGAATTATGGAAGCAG GCAACTAGAAACTATGAAAAAGCTGTTCAACTCAATTGGAACAGTCCCCAG
genomic: GGGCAAAAATGCGGGGTCGTACTAAGGAGGCTGAAGAATTATGGAAGCAGgtttgaccca ... caccctgcagGCAACTAGAAACTATGAAAAAGCTGTTCAACTCAATTGGAACAGTCCCCAG
EST:
gi|110714993|gb|EE092538.1|EE092538EST: ATGCGGGGTCGTACTAAGGAGGCTGAAGAATTATGGAAGCAG GCAACTAGAAACTATGAAAAAGCTGTTCAACTCAATTGGAACAGTCCCCAG
genomic: ATGCGGGGTCGTACTAAGGAGGCTGAAGAATTATGGAAGCAGgtttgaccca ... caccctgcagGCAACTAGAAACTATGAAAAAGCTGTTCAACTCAATTGGAACAGTCCCCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagaaaagacaattttggaaacactaattcacatcttattcttttcaccctgcagGCAACTAGAAACTATGAAAAAGCTGTTCAACTCAATTGGAACAGTCCCCAG
cactaat putative branch site (score: 2)
tcttattcttttcacc putative PPT
ttattctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttctgcaagctctttaaattataattgcccaataatcttttgctgagaaaagacaattttggaaacactaattcacatcttattcttttcaccctgcagGCAACTAGAAACTATGAAAAAGCTGTTCAACTCAATTGGAACAGTCCCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - tgcaagc
- - - - - - - - - - - - -ttgccca
- - - - - - - - - - - - - - - - - - -cttttgc
- - - - - - - - - - - - - - - - - - - - - - -gagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaca