Sequence
atgc intronic sequence ATGC exonic sequencegtccaactgttcctgaaactcttcaaccatcacaattcttgagattattttttcccttttttttttcttgtaaattttaattttacttcttcaagatcttgttaattgctatttgggtactgaaagttgaatctttttcctgtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g01900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os04g04020.1 (Oryza sativa), 3'ss of exon 8
gtccaactgttcctgaaactcttcaaccatcacaattcttgagattattttttcccttttttttttcttgtaaattttaattttac--ttcttcaagatcttgttaattgctatttgggtactgaaagttg-aatctttttcctgtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT
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-------------------------------------------------------------------------gttctgagctgacaatattttaaagttttatttatcagc-ttaacattcaatgacttacaaactgatgtctgc--ttgcagGGGTGCGCTTCACAACTTATCATGGCCATTTCATGCTAAGGTCCACCGACTTATTAGCACTTCCAGCTGTTGACTCTGATAAAGCATTTGCAATGCAACT
upper sequence: Vv19s0014g01900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G143725_T01 (Zea mays), 3'ss of exon 8
gtccaactgttcctgaaactcttcaaccatcacaattcttgagattattttttcccttttttttttcttgtaaattttaattttacttcttcaagatcttgttaattgctatttgggtactgaaagttgaatctttttcctgtaat----tttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT
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---------------------------------------------------------------gttcatccacatttgcatttatcttcat-------tttctaattgtc-tttgttagtttatgatttgatctaactcataacatctgcttcagGAGTACGGTTCACAACCTATCATGGTCATTTCATGCTACGATCCACAGACCTGTTAGCCCTTCCAGCTGTTGACTCTGATAAAGCTTTTGCAATGCAATT
upper sequence: Vv19s0014g01900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM5G826171_T01 (Zea mays), 3'ss of exon 3
gtccaactgttcctgaaactcttcaaccatcacaattcttgagattattttttcccttttttttttcttgtaaattttaattttacttcttcaagatcttgttaattgctatttgggtactgaaagttgaatctttttcctgtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT
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--------------------------------------------------------------gttcaattcacagctgcatttatcttcattttctatttgtatttggtagtttatgaattgat--ctaactctcatagcatctgtttcagGAGTACGGTTCACAACCTATCATGGTCATTTCATGCTACGGTCCACAGACCTGTTAGCCCTTCCAGCTGTTGACTCTGATAAAGCTTTTGCAATGCAACT
upper sequence: Vv19s0014g01900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G38830.1 (Glycine max), 3'ss of exon 7
gtccaactgttcctgaaactcttcaaccatcacaattcttgagattattttttcccttttttttttcttgtaaattttaattttacttcttcaagatcttgttaattgctatttgggtactgaaagttgaatctttttcctgtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT
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----------------gtctgtgcatctattatag--cttgaaaattcttttcttcattgcctccttttgtttatctg----ctgttccatgcaactcatatatggtattacatgcata---aaattgctgataattgcctatatttttagGTGTTCGCTTCACAACTTATCATGGAAACTTCATGCTGAGGTCCACTGATTTGTTAGCACTTCCTGCTGTAGATTGTGATAAAGCCTTTGCCATGCAGTT
upper sequence: Vv19s0014g01900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G41400.2 (Glycine max), 3'ss of exon 8
gtccaactgttcctgaaactcttcaaccatcacaattcttgagattattttttcccttttttttttcttgtaaattttaattttacttcttcaagatcttgttaattgctatttgggtactgaaagttgaatctttttcctgtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT
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----------------gtctgtgcatccattttatatattgaaaatacatttcttcattgcctccttttgt-----tta--tctgctgttcca------tgcaacatgc-ataaaattgctgataattg---------cctatatttttagGTGTTCGCTTCACAACTTATCATGGAAACTTCATGCTGAGGTCCACCGATTTGTTAGCACTTCCTGCTGTAGATTGTGATAAAGCCTTTGCCATGCAGTT
upper sequence: Vv19s0014g01900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA10G28520.1 (Glycine max), 3'ss of exon 10
gtccaactgttcctgaaactcttcaaccatcacaattcttgagattattttttcccttttttttttcttgtaaattttaattttacttcttcaagatcttgttaattgctatttgggtactgaaagttgaatctttttcctgtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT----------------------------------------
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-------------------------------------------------------------------------------------------------------------------------------------------------------gtgtctgattcacaacttatcatggaaactttatgctaagGTCCACAGATTTGTTAGCACTTCCAGCTGTCGATTGTGATAAGGCATATGCCATGCAGCTATCTCTTGAAGAAACATTATTGACAACTCAGACAATGTAT
upper sequence: Vv19s0014g01900.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G07100.1 (Arabidopsis thaliana), 3'ss of exon 8
gtccaactgttcctgaaactcttcaaccatcacaattcttgagattattttttcccttttttttttcttgtaaattttaattttacttcttcaagatcttgttaattgctatttgggtactgaaagttgaatctttttcctgtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT
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--------------------------gtttaatagtttatgataatatatt----cgtttttgctacctgctatgtcaatatttgctaatgca-----ttggtg--tgctacttgtgatcttata---------tatttttgca--tgcagGAATTCGTTTCTCGTCCTACCATGGGAACTTCATGCTAAGGTCTACTGACCTGCTTGCTCTTCCTGCTGTTGACTGTGACAAAGCGTATGCAATGCAGCTMapped 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|351029676|gb|FQ427516.1|FQ427516EST: TACAAGGGAAACTGCCTGGGAAGCTGTCATGCGCATAAGATGTGGCAAAG GTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATT
genomic: TACAAGGGAAACTGCCTGGGAAGCTGTCATGCGCATAAGATGTGGCAAAGgtccaactgt ... gtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATT
EST:
gi|71865235|gb|DT014290.1|DT014290EST: ATGTGGCAAAG GTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATT
genomic: ATGTGGCAAAGgtccaactgt ... gtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgttaattgctatttgggtactgaaagttgaatctttttcctgtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT
tgttaat putative branch site (score: 3)
tctttttcctgt putative PPT
tgtaatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtccaactgttcctgaaactcttcaaccatcacaattcttgagattattttttcccttttttttttcttgtaaattttaattttacttcttcaagatcttgttaattgctatttgggtactgaaagttgaatctttttcctgtaattttagGTGTGCGGTTTACATCTTATCATGGGAACTTCATGCTAAGATCCACTGATTTGTTAGCCCTTCCAGCTGTAGACTGTGATAAAGCCTTTGCAATGCAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG