Sequence
atgc intronic sequence ATGC exonic sequence...aagagataccagatggggtgttgtagttggttaatggttccagaatgaagatccttgtttaatttttttacctccacctttacaattatattttccatagGTATCGTATCACTGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAATTAAGGAACTGGGTCGGACACGCATGGAAGTGAATGTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g46510.1 (Oryza sativa), 3'ss of exon 8
aagagatacca-gatggggtgttgtagttggttaatggttccagaatgaagatccttgtttaatttttttacctccacctttacaattatatttt-ccatagGTATCGTATCACTGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAATTAAGGAACTGGGTCGGACACGCATGGAAGTGAATGTCAAG
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--gtaatattatgatccctccttatgcttg--tattagttttcccctgtagtgacattttta--ttctttacttggcttttgaccacaaaattctgttgtagATATCGAATCACTGAGGGTGTAAATCTCCCATTCCGGGTTCTACCAACGATTAAGGAATTGGGCCGAACACGCATGGAGATAAATGTTAAA
upper sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G331032_T01 (Zea mays), 3'ss of exon 8
-aagagataccagatggggtgttgtagttggttaatggttccag--aatgaagatccttgtttaattt-ttttacctccaccttta-------caattatattttccatagGTATCGTATCACTGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAATTAAGGAACTGGGTCGGACACGCATGGAAGTGAATGTCAAG
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gtaaatcttctgattcctcttttatgtttgtaattttgtccctgctaatgacttgcactattaaatgcactttggctgggttttcagttgtgatagataaatttgttgtagGTATCGAATCACAGAGGGTGTAAACCTTCCATTCCGTGTTCTGCCGACAATCAAGGAATTGGGCCGAACACGCATGGAGATCAACGTGAAA
upper sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA01G40700.1 (Glycine max), 3'ss of exon 8
------aagagataccagatggggtgttgtagttggttaatggttccagaatgaagatccttgtttaatttttttacctccacctttacaattatattttccatagGTATCGTATCACTGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAATTAAGGAACTGGGTCGGACACGCATGGAAGTGAATGTCAAG
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tataaaatgactagtgatataggatcaggtgaattcttgatggtgcaagaa---aggccattggt--gttgtctaatatctgctaacattattttatattg-gtagATATCGTATCACTGAGGGTGTTAATCTTCCCTTCAAAGTATTGCCAACCATCAAGGAACTTGGTCGAACACGGATGGAAGTAAATGTTAAG
upper sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G04600.1 (Glycine max), 3'ss of exon 8
-------aagagataccagatggggtgttgtagttggttaatggttccagaatgaagatccttgtttaatttttttacctccacctttacaattatattttccatagGTATCGTATCACTGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAATTAAGGAACTGGGTCGGACACGCATGGAAGTGAATGTCAAG
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ttataaaatcacaagtgatataggatcaggtgaattcttgacagtgccagaatggccat--tggttttgtctaatatctgctaacattac--ttatattg---gtagATATCGTATCACTGAGGGTGTTAATCTTCCCTTCAAAGTATTGCCAACCATAAAGGAACTTGGTCGAACACGGATGGAAGTAAATGTTAAG
upper sequence: Vv02s0012g00910.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G46630.2 (Arabidopsis thaliana), 3'ss of exon 8
aagagataccagatggggtgttgtagttggttaatggttccagaatgaagatccttgtttaatttttttacctccacctttacaattatatttt----ccatagGTATCGTATCACTGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAATTAAGGAACTGGGTCGGACACGCATGGAAGTGAATGTCAAG
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--------------------------------gtaagttttcgaatgtccactgttgca-aattgttctggtaccaaatgtgtattaactttatgatgtctcagGTATCGAATAACAGAGGGTGTAAATCTGCCTTTCCGTGTATTACCAACAATCAAAGAACTTGGTCGTACACGTATGGAAGTAAATGTCAAGMapped 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|110387207|gb|EC951857.1|EC951857EST: CCGTCAGTTTTGTGCCACCAGATGGTGAATTTGAAATGATGAA GTATCGTATCACCGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAAT
genomic: CCGTCAGTTTTGTGCCACCAGATGGTGAATTTGAATTGATGAAgtaagctcaa ... ttttccatagGTATCGTATCACTGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAAT
EST:
gi|29782813|gb|CB348455.2|CB348455EST: GAAAAGACCGTCAGTTTTGTGCCACCAGATGGTGAATTTGAATTGATGAA GTATCGTATCACCGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAAT
genomic: GAAAAGACCGTCAGTTTTGTGCCACCAGATGGTGAATTTGAATTGATGAAgtaagctcaa ... ttttccatagGTATCGTATCACTGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAAT
EST:
gi|28969506|gb|CB348539.1|CB348539EST: AATTTGAATTGATGAA GTATCGTATCACCGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAAT
genomic: AATTTGAATTGATGAAgtaagctcaa ... ttttccatagGTATCGTATCACTGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaagatccttgtttaatttttttacctccacctttacaattatattttccatagGTATCGTATCACTGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAATTAAGGAACTGGGTCGGACACGCATGGAAGTGAATGTCAAG
gtttaat putative branch site (score: 4)
tattttcc putative PPT
tttacaattatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagagataccagatggggtgttgtagttggttaatggttccagaatgaagatccttgtttaatttttttacctccacctttacaattatattttccatagGTATCGTATCACTGAGGGTGTAAATCTTCCATTCCGAGTATTGCCAACAATTAAGGAACTGGGTCGGACACGCATGGAAGTGAATGTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - ccagatg
- - - - - - - - ggtgttg
- - - - - - - - - - - -tagttgg
- - - - - - - - - - - - - - - - - - - - cagaatg