Sequence
atgc intronic sequence ATGC exonic sequencegttttattcttatataacttcttttttctcctagcacgccattgttcaagcattaaagttggccccttaaaattctttttttgtttgtttttttttttttttttaaatacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAACAAGGACCTTTATCTCGGGACATTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g12950.1 (Oryza sativa), 3'ss of exon 7
-------gttttattcttatataacttcttttttctcctagcacgccattgttcaagcattaaagttggccccttaaaattctttttttgtttgtttttttttttttttttaaatacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAACAAGGACCTTTATCTCGGGACATTCA
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gtgtttcattttgtgctgaacaagcatatgcatttttcttg---ataattatttcaagaacacattcg---catcaagatacaatctcactgtgttaaatgttaactgcat---tgcagGCATCACCAGCATGGAAGATGGCAAGCTCGGATTGGCAGGGTTGCTGGCAACAAGGACTTGTATCTCGGCACTTTCA
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G063994_T01 (Zea mays), 3'ss of exon 3
gttttattcttatataacttcttttttctcctagcacgccattgttcaagcattaaagttggccccttaaaattctttttttgtttgtttttttttttttttttaaatacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAACAAGGACCTTTATCTCGGGACATTCA----------
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--------------------gttcgtttgcccagactactat-gccaccgcatt----ttgcttccttagagatc-------gtctcaatgtacacgctaactgcattgcagGCACCACCAGCAAGGAAGATGGCAGTCTCGGATTGGAAGGGTCGCTGGAAACAAGGATCTATACCTCGACACTTTTAGTAAGAAAGA
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G021573_T02 (Zea mays), 3'ss of exon 6
gttttattcttatataacttcttttttctcctagcacgccattgttcaagcattaaagttggccccttaaaattctttttttgtttgtttttttttttttttttaaatacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAACAAGGACCTTTATCTCGGGACATTCA
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-gttcgtctgtgcagggattgcgccaccgcatctcgcttccttattattgtgcgga---caactaacgtaagtgaagagatcgtctcaatgcacacgctaactgcattgcagGCACCACCAGCAAGGAAGATGGCAGTCTCGGATTGGAAGAGTCGCTGGAAACAAGGATCTATACCTCGGCACTTTCA
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G05170.1 (Glycine max), 3'ss of exon 8
gttttattcttatataacttcttttttctcctagcacgccattgtt-caagcattaaagttggccccttaaaattctttttt-tgtttgtttttttttttttttttaa-atacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAACAAGGACCTTTATCTCGGGACATTCA
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----------------gttcgtgtggttctcctgcaccctttttttattagtaataatagtgatacttcagtttgatgatttgtgttaagtttattttttaatattattattcagGCACCACCAACATGGAAGATGGCAAGCGAGGATAGGCAGAGTTGCTGGGAACAAAGACCTTTACCTTGGGACATTCA
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G05080.1 (Glycine max), 3'ss of exon 7
gttttattcttatataacttcttttttctcctagcacgccattgttca--agcattaaagttggccccttaaaattctttttttgtttgtttttttttttttttttaaatacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAACAAGGACCTTTATCTCGGGACATTCA
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------------------gttggtgtggttctgccccctttttcttcattagtagtggaactttagtttgatgatttgtgtcaagtttattttttaatattattattatt-cagGCATCACCAACATGGAAGATGGCAAGCGAGGATAGGCAGAGTTGCTGGGAACAAAGACCTTTACCTTGGGACGTTCA
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA0041S00200.1 (Glycine max), 3'ss of exon 9
gttttattcttatataacttcttt-tttctcctagcacgccattgttcaagcattaaagttggccccttaaaattctttttttgtttgtttttttttttttttttaaatacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAACAAGGACCTTTATCTCGGGACATTCA
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-------gttcatgctgttcctctgccactttttattttttattttataaactatagaaattaaacatgttggctaattaggggttaactccatttttgaatgtta--tgcagGCACCACCAACATGGCAGGTGGCAAGCAAGGATAGGCAGAGTTGCAGGAAATAAGGACCTTTATCTTGGGACATTCA
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G10130.1 (Glycine max), 3'ss of exon 9
gttttattcttatataacttcttttttctcctagcacgccattgttcaagcattaaagttggccccttaaaattctttttttgtttgtttttttttttttttttaaatacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAACAAGGACCTTTATCTCGGGACATTCA
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---------------gttcatgctgttcctctgctacttttatatatatatatagaaattaaacatgttgg----ttaattaggttaaatccacctttaatgtta--tgcagGCACCACCAACATGGCAGGTGGCAAGCAAGGATAGGCAGAGTTGCAGGAAATAAGGACCTTTATCTTGGGACATTCAMapped 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|110700948|gb|EE078047.1|EE078047EST: AAAAGCAGTGGATTCTCAAGAGGGGCTTCAATGTATAGAGGAGTGACAAG GCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAA
genomic: AAAAGCAGTGGATTCTCAAGAGGGGCTTCAATGTATAGAGGAGTGACAAGgttttattct ... ttaaatacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAA
EST:
gi|110713874|gb|EE090177.1|EE090177EST: AAAAGCAGTGGATTCTCAAGAGGGGCTTCAATGTATAGAGGAGTGACAAG GCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAA
genomic: AAAAGCAGTGGATTCTCAAGAGGGGCTTCAATGTATAGAGGAGTGACAAGgttttattct ... ttaaatacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttggccccttaaaattctttttttgtttgtttttttttttttttttaaatacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAACAAGGACCTTTATCTCGGGACATTCA
ttctttttttgtttgt CT-rich tract
ttaaaattcttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttattcttatataacttcttttttctcctagcacgccattgttcaagcattaaagttggccccttaaaattctttttttgtttgtttttttttttttttttaaatacagGCATCATCAACATGGAAGATGGCAGGCTCGGATTGGGAGGGTTGCTGGAAACAAGGACCTTTATCTCGGGACATTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA