Sequence
atgc intronic sequence ATGC exonic sequencegtatgtttattcaactctcttcctccccctttctttattttgggctttttaatgctaatctaaacataagttgcacaaaagttgtgagttatgactggataactttgatgcagGTCATGCAAGAACTGGGTTTAATTGGTTTACGCATTCAAAGGATGCCAAGTGAACCTGGGCTGGAGTTTGGTATTCCTTCTCAATATAGCTATATGACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g00670.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM2G136803_T02 (Zea mays), 3'ss of exon 10
gtatgtttattcaactctcttcctccccctttctttattttgggctttttaatgctaatctaaacataagttgcacaaaagttgtgagttatgactg-gataactttgatgcagGTCATGCAAGAACTGGGTTTAATTGGTTTACGCATTCAAAGGATGCCAAGTGAACCTGGGCTGGAGTTTGGTATTCCTTCTCAATATAGCTATATGACG
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-------------------------------------gtatgaccccttttctggacactcgaa-gttgttaactaacccactgttaatgataacgatgaaaacttctatgcagGTTATGCAAGAACTGGGGTTGATTGGATTGCGTATCCAAAGAATGCCTAGTGAACCAAACTTGGAATTTGGTATTCCTTCTCAGTATAGCTATATGACG
upper sequence: Vv08s0040g00670.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA03G27600.1 (Glycine max), 3'ss of exon 19
-----------------------------------------------------------------gtatgtttattca-actctcttcctccccctttcttta--ttttgggctttttaatgctaatctaaacataagttgcacaaaagttgtgagttatgactggataact-ttgatgcagGTCATGCAAGAACTGGGTTTAATTGGTTTACGCATTCAAAGGATGCCAAGTGAACCTGGGCTGGAGTTTGGTATTCCTTCTCAATATAGCTATATGACG
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gtatgcccattatgttttccttaagctctcctaatcatgaaaatctatctctatttcacttgcagacacatacatacacactcacattctgacttatcctaaagatattaaaataattattttttatttttattttattttgggtacactgaaaggatttgactataaatttgttaatgtagGTTATGCAAGAACTGGGATTAGTTGGGTTGCGCATTCAGCGCATGCCCAATGAACCTGATCTGGAATTTGGTATTCCTTCTAAGTACAGCTACATGACG
upper sequence: Vv08s0040g00670.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA19G30580.1 (Glycine max), 3'ss of exon 20
-------------------------------------------------------------------------------------gtatgtttattcaactctcttcctccccctttctttattttgggctttttaatgctaatctaaacataagttgcacaaaagttgtgagttatgactggataact-ttgatgcagGTCATGCAAGAACTGGGTTTAATTGGTTTACGCATTCAAAGGATGCCAAGTGAACCTGGGCTGGAGTTTGGTATTCCTTCTCAATATAGCTATATGACG
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gtatgcccattatgttttccttaagctctcctaatctagaaaatctatctctatttcacttgcagacacacaagcacacacacacacacacatactca-cattctgacttatcctaaagatattaaaagaattagatttttatttttatcttaatttgggtacattgttaggatt-tgactataaatttgttaatgtagGTTATGCAAGAACTGGGATTAGTTGGGTTGCGCATTCAGCGCATGCCCAATGAACCTGATCTGGAATTTGGTATTCCTTCTAAGTACAGCTACATGACGMapped 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|26264000|gb|CA815063.1|CA815063EST: TGCTGGCTTGTGGAGAAGATCTTGGCCTTATTCCTTCTTGTGTTCATCCT GTCATGCAAGAACTGGGTTTAATTGGTCTACGCATTCAAAGGATGCCAAGT
genomic: TGCTGGCTTGTGGAGAAGATCTTGGCCTTATTCCTTCTTGTGTTCATCCTgtatgtttat ... tttgatgcagGTCATGCAAGAACTGGGTTTAATTGGTTTACGCATTCAAAGGATGCCAAGT
EST:
gi|18458362|gb|BM436640.1|BM436640EST: TGCTGGCTTGTGGAGAAGATCTTGGCCTTATTCCTTCTTGTGTTCATCCT GTCATGCAAGAACTGGGTTTAATTGGTTTACGCATTCAAAGGATGCCAAGT
genomic: TGCTGGCTTGTGGAGAAGATCTTGGCCTTATTCCTTCTTGTGTTCATCCTgtatgtttat ... tttgatgcagGTCATGCAAGAACTGGGTTTAATTGGTTTACGCATTCAAAGGATGCCAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctaaacataagttgcacaaaagttgtgagttatgactggataactttgatgcagGTCATGCAAGAACTGGGTTTAATTGGTTTACGCATTCAAAGGATGCCAAGTGAACCTGGGCTGGAGTTTGGTATTCCTTCTCAATATAGCTATATGACG
ataacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtttattcaactctcttcctccccctttctttattttgggctttttaatgctaatctaaacataagttgcacaaaagttgtgagttatgactggataactttgatgcagGTCATGCAAGAACTGGGTTTAATTGGTTTACGCATTCAAAGGATGCCAAGTGAACCTGGGCTGGAGTTTGGTATTCCTTCTCAATATAGCTATATGACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA