Sequence
atgc intronic sequence ATGC exonic sequencegtaaattttcatcatttctgttcagcaattatcctcctatcaacttcttggattgacgatttttttttttttttgtatgcattcatacacgactccagAGGACTGAAAATGATAGGGTTTGCTTTGGTAGATCTGGAATACATGGCTGGGGCCTCTTTGCACGACAAGCTATTCAAGAAGGAGATATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA19G17460.1 (Glycine max), 3'ss of exon 10
gtaaattttcatcatttctgttcagcaattatcctcctatcaacttcttggattgacgatttttttttttttttgtatgcat-tcatacacgactccagAGGACTGAAAATGATAGGGTTTGCTTTGGTAGATCTGGAATACATGGCTGGGGCCTCTTTGCACGACAAGCTATTCAAGAAGGAGATATG
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gtaaatctcc----tctttcttaagcagtcat-------tggattt----ggtgatcggttttctgattgtcttgcatgattgttttacataatttcagAGAACAGAAAATGAAAGAGTTTGCTTTGGTAGATCAGGCATACATGGATGGGGCCTCTTTGCACGTCAAAATATTCAAGAAGGGGAAATG
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA04G41500.1 (Glycine max), 3'ss of exon 19
gtaaattttcatcatttctgttcagcaattatcctcctatcaacttcttggattgacgatttttttttttttttgtatgcattcatacacgactccagAGGACTGAAAATGATAGGGTTTGCTTTGGTAGATCTGGAATACATGGCTGGGGCCTCTTTGCACGACAAGCTATTCAAGAAGGAGATATG
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----------gtaattctaatctttctaaggtgg----attatttgcttcagtggtcaattttctgactgttttatgggtactt-tgtatgattccagAGAACCGAAAATGAACGGGTTTGCTTTGGTAGATCAGGCATACATGAATGGGGCCTCTTTGCACGAAGAAATATTCAAGAAGGAGACATG
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 19
gtaaattttcatcatttctgttcagcaattatcctcctatcaacttcttggattgacgatttttttttttttttgtatgcattcatacacgactccagAGGACTGAAAATGATAGGGTTTGCTTTGGTAGATCTGGAATACATGGCTGGGGCCTCTTTGCACGACAAGCTATTCAAGAAGGAGATATG
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----------gtaattcttctctttctaaggtgg----attatttgcttcagcagtcaattttctgactgttttatgggtactt-tgtatgattccagAGAACCGAAAATGATCGGGTTTGCTTTGGTAGATCAGGCATACACGGATGGGGCCTCTTTGCACGTAGAAATATTCAAGAAGGAGACATG
upper sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 19
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 18
gtaaattttcatcatttctgttcagcaattatcctcctatcaacttcttggattgacgatttttttttttttttgtatgcattcatacacgactccagAGGACTGAAAATGATAGGGTTTGCTTTGGTAGATCTGGAATACATGGCTGGGGCCTCTTTGCACGACAAGCTATTCAAGAAGGAGATATG
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gtaagcattcctcgcatatctgaaggag--actgtactatatagttgt-atcttg----ttgtaataacatctgacaagt-ttcatgtgttgtgacagAGGACAGAAATGGAACGGGTCTGCTTTGGTCGATCTGGTATACATGGATGGGGCCTTTTTGCGAGAAGAAATATTCAAGAAGGAGAAATGMapped 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|30133456|gb|CB918795.1|CB918795EST: AAGAGCCTAAAAATTTTTCTACTTTCAGGGAACGGCTTTACCACTTGCAG AGGACTGAAAATGATAGGGTTTGCTTTGGTAGATCTGGAATACATGGCTGG
genomic: AAGAGCCTAAAAATTTTTCTACTTTCAGGGAACGGCTTTACCACTTGCAGgtaaattttc ... acgactccagAGGACTGAAAATGATAGGGTTTGCTTTGGTAGATCTGGAATACATGGCTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttcttggattgacgatttttttttttttttgtatgcattcatacacgactccagAGGACTGAAAATGATAGGGTTTGCTTTGGTAGATCTGGAATACATGGCTGGGGCCTCTTTGCACGACAAGCTATTCAAGAAGGAGATATG
gattgac putative branch site (score: 3)
attttttttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaattttcatcatttctgttcagcaattatcctcctatcaacttcttggattgacgatttttttttttttttgtatgcattcatacacgactccagAGGACTGAAAATGATAGGGTTTGCTTTGGTAGATCTGGAATACATGGCTGGGGCCTCTTTGCACGACAAGCTATTCAAGAAGGAGATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT