Sequence
atgc intronic sequence ATGC exonic sequencegtgagaatcctgtttgcttgagttcatctataattgagaatgttaagattctttttattttctttggaaaagattttcactttcttttttgcactgatattcttgtgcatgttggcagATGCGTGCTACTGTGAGAAACGTGGCTAAGTTTTTCCCAACCGCAATAATTAGTGGAAGAAGTCGGGATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G36570.1 (Glycine max), 3'ss of exon 3
gtgagaatcctgtttgcttgagttcatctataattgagaatgttaagattctttttattttctttggaaaagattttcactttcttttttgcactgatattcttgtgcatgttggcagATGCGTGCTACTGTGAGAAACGTGGCTAAGTTTTTCCCAACCGCAATAATTAGTGGAAGAAGTCGGGATAAG
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gtatgtggtac-tctccttgggttta-ctatccataataacatcaat-tgggttttattct-----------attctcatttttctttggctaattacaattctgttaactctg-cagATGCGTGCTGCTGTTAAGAAGGTGGCAGAATATTTTCCAACGGCAATAATTAGTGGAAGAAGTCGTGATAAG
upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G47630.2 (Glycine max), 3'ss of exon 2
gtgagaatcctgtttgcttgagttcatctataattgagaatgttaagattctttttattttctttggaaaagattttcactttctttt--ttgcactgatattcttgtgc----atgttggcagATGCGTGCTACTGTGAGAAACGTGGCTAAGTTTTTCCCAACCGCAATAATTAGTGGAAGAAGTCGGGATAAG
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-------------------------gtatgtaatgctgtcttttgatttagtgtccagattttcaattaggtgtttttcttctcttgttattaccttgatgatctgatcctgaaacttctgcagATGCGTGCTGCTGTTAAAAAAGTGGCGGAATATTTTCCAACCGCGATAATTAGTGGAAGAAGCCGTGACAAG
upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G00790.1 (Glycine max), 3'ss of exon 3
gtgagaatcctgtttgcttgagttcatctataattgagaatgttaagattctttttattttctttggaaaagattttcactttcttttttgcactgatattcttgtgcatgttggcagATGCGTGCTACTGTGAGAAACGTGGCTAAGTTTTTCCCAACCGCAATAATTAGTGGAAGAAGTCGGGATAAG
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-----------gtatgtggtactctccttgggtttactatccataacatcaattgggttttattctt------ttctcatttttctttggctaattacaatcctgtcaacactg-tagATGCGTGCTGCTGTTAAAAAGGTGGCAGAATATTTTCCAACAGCAATAATTAGTGGAAGAAGCCGTGATAAG
upper sequence: Vv16s0022g00660.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G51460.2 (Arabidopsis thaliana), 3'ss of exon 2
gtgagaatcctgtttgcttgagttcatctataattgagaatgttaagattctttttattttctttggaaaagattttcactttcttttttgca-ctgatattcttgtgcatgttggcagATGCGTGCTACTGTGAGAAACGTGGCTAAGTTTTTCCCAACCGCAATAATTAGTGGAAGAAGTCGGGATAAG
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----gtaagtttttaactttcctctat---taaattcaattgctaaaacagatcaaattt-----gtgattcatcctcataatgaattatatggttcacgcctttttacatgtt--tagATGCGTAGTGCAGTGCAAAATGTTGCCAAGTATTTCCCTACCGCGATCATTAGTGGAAGAAGCCGGGATAAGMapped 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|110365313|gb|EC928101.1|EC928101EST: CTCTCTCACCTATTGTAGACAACCCTGACCGAGCCTTCATGTCTGATTGT ATGCGTGCTACTGTGAGAAACGTGGCTAAATTTTTCCCAACCGCAATAATT
genomic: CTCTCTCACCTATTGTAGACAACCCTGACCGAGCCTTCATGTCTGATTGTgtgagaatcc ... atgttggcagATGCGTGCTACTGTGAGAAACGTGGCTAAGTTTTTCCCAACCGCAATAATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggaaaagattttcactttcttttttgcactgatattcttgtgcatgttggcagATGCGTGCTACTGTGAGAAACGTGGCTAAGTTTTTCCCAACCGCAATAATTAGTGGAAGAAGTCGGGATAAG
cactgat putative branch site (score: 3)
tttctttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaatcctgtttgcttgagttcatctataattgagaatgttaagattctttttattttctttggaaaagattttcactttcttttttgcactgatattcttgtgcatgttggcagATGCGTGCTACTGTGAGAAACGTGGCTAAGTTTTTCCCAACCGCAATAATTAGTGGAAGAAGTCGGGATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT