Sequence
atgc intronic sequence ATGC exonic sequence...ctttggcgatccttcagtttgccttttgttttattgattatgttttcgcttatttggtctttgtttttttccccctacattttggcaatttggagtatagATGGCTCTAATTGCGAGAATCCAACACCCTTACATTGTTGAATTTAAGGAAGCATGGGTAGAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g64490.1 (Oryza sativa), 3'ss of exon 3
ctttggcgatccttcagtttgccttttgttttattgattatgttttcgcttatttggtctttgtttttttccccctacattttggcaatttggagtatagATGGCTCTAATTGCGAGAATCCAACACCCTTACATTGTTGAATTTAAGGAAGCATGGGTAGAGAAG
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------------gtcagtgaaaatcaagaaaccttgggccc-ttttcgttcatc-ggttcatgctgcattga----acaatttaaaaatata---tgcagATGGCCCTTATTGCTCGCCTGCAACATCCTTACATTGTTGAGTTCAAGGAAGCATGGGTTGAGAAG
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os05g36960.1 (Oryza sativa), 3'ss of exon 2
ctttggcgatccttcagtttg--ccttttgttttattgattatgtt--ttcgcttatttggtctttgtttttttcccc-ctacattttggc-aatttggagtatagATGGCTCTAATTGCGAGAATCCAACACCCTTACATTGTTGAATTTAAGGAAGCATGGGTAGAGAAG
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gttagtggaatgtggaagtggaagcttgcaatccctaggctttgtttgttcggttgtttgctagtggtattattaggaatttgatcacgacgaaaacgaattgcagATGGCTCTGATTGCTCGGTTGCAACACCCTTACATTGTTGAATTCAAAGAGGCTTGGGTTGAGAAG
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 3
ctttggcgatccttcagtttgccttttgttttattgattatgttttcgcttatttggtctttgtttttttccccctacattttggcaat-ttggagtatagATGGCTCTAATTGCGAGAATCCAACACCCTTACATTGTTGAATTTAAGGAAGCATGGGTAGAGAAG
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-----------------------gttggtgaaatgtgatgctttatttctgattcatcggttgtgccttgaagagtcagtaagggaaaagctgaattgcagATGGCTCTAATTGCTCGGCTGCAGCACCCTTACATTGTTGAATTCAAGGAGGCTTGGGTTGAGAAG
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G09910.1 (Glycine max), 3'ss of exon 2
----------------------ctttggcgatccttcagtttgccttttg-ttttattgattat--gttttcgctta----tttggtctttgtttttttcccc------ctacattttggcaatttg-----gagtatagATGGCTCTAATTGCGAGAATCCAACACCCTTACATTGTTGAATTTAAGGAAGCATGGGTAGAGAAG
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gtgagtttattttttccgtgtgtgtctgcgtgccttgcgtgtgctttttggttatctctgctagtagatttggatcaaaatcctggaatctgcttgtttgtggaggggatttaactgttgttgtttgttgctaattgtagATGGCTCTTATTGCTCGAATCCAGCACCCTTACATTGTGGAATTCAAGGAGGCATGGGTTGAGAAG
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G18340.1 (Glycine max), 3'ss of exon 2
---------------------------------------------ctttggcgatcctt-----cagtttgccttttgttttattgattatgttttcgcttatttggtctttgtttttttccccctacattttggcaatttggagtatagATGGCTCTAATTGCGAGAATCCAACACCCTTACATTGTTGAATTTAAGGAAGCATGGGTAGAGAAG
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gtgagtttatttgtgtttgtgcgcgcacgcctgcatgcgtgtgctttttggttatccttgcttgtagatttgcttcatatacatggaatctgcttttgtttgt--ggaggggatttgactgttgctgtttgttggtaatt------gtagATGGCTCTTATTGCTCGAATCCAGCACCCTTACATTGTGGAATTCAAGGAGGCATGGGTTGAGAAGMapped 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|71862067|gb|DT011122.1|DT011122EST: TCAGGTTGGCACGACAAACGGAGAGGTGCCGGAGATCTGCTCATCAGGAG ATGGCTCTAATTGCGAGAATCCAACACCCTTACATTGTTGAATTTAAGGAA
genomic: TCAGGTTGGCACGACAAACGGAGAGGTGCCGGAGATCTGCTCATCAGGAGgtaggtttca ... tggagtatagATGGCTCTAATTGCGAGAATCCAACACCCTTACATTGTTGAATTTAAGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcgcttatttggtctttgtttttttccccctacattttggcaatttggagtatagATGGCTCTAATTGCGAGAATCCAACACCCTTACATTGTTGAATTTAAGGAAGCATGGGTAGAGAAG
tttgttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttggcgatccttcagtttgccttttgttttattgattatgttttcgcttatttggtctttgtttttttccccctacattttggcaatttggagtatagATGGCTCTAATTGCGAGAATCCAACACCCTTACATTGTTGAATTTAAGGAAGCATGGGTAGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - -tccttca
- - - - - - - - gtttgcc