Sequence
atgc intronic sequence ATGC exonic sequence...taactcatccttgttttttattgattctctatcaaatgaattgtttattccccctatcaaaagatttttcaggtgttgatgggttggatctattttttagGTTTTGTATATATCCTTGCATAGACATGAAGGGGGAAACTTCTATCCTGGTACTGGGGCATCACACGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g04120.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA05G07990.1 (Glycine max), 3'ss of exon 12
--taactcatccttgttttttattgattctctatcaaatgaattgtttattccccctatcaaaagatttttcaggtgttgatgggttggatctattttttagGTTTTGTATATATCCTTGCATAGACATGAAGGGGGAAACTTCTATCCTGGTACTGGGGCATCACACGAG
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tgttttttaaattttttttgaagttttattgtctttagtggctaagctactaatcttttcat--gatttttctggtgctaacaagttttttctttcatatagGTCTTGTATATATCATTGCATAGACATGAGGGAGGAAAGTTTTATCCTGGTACTGGAGCTGCCGAAGAG
upper sequence: Vv17s0000g04120.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA17G13000.1 (Glycine max), 3'ss of exon 9
taactcatccttgtttttta--ttgattctctatcaaatgaattgtttattccccctatcaaaagatttttcaggtgttgatgggttggatctattttttagGTTTTGTATATATCCTTGCATAGACATGAAGGGGGAAACTTCTATCCTGGTACTGGGGCATCACACGAG
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ttttttataatttttttaaagttttattgtgtctttagtcactaagctactaatcttttcat--gatttttcctgtgctaacaagttttttctttcccatagGTCTTGTATATATCATTGCATAGACACGAGGGAGGAAAATTTTATCCTGGTACTGGAGCTGCTGAAGAG
upper sequence: Vv17s0000g04120.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT3G18520.1 (Arabidopsis thaliana), 3'ss of exon 11
-----------taactcatccttgttt-tttattgattctc---tatcaaatgaattgtttattccccctatcaaaagatttttcaggtgttgatgggttggatctattttttagGTTTTGTATATATCCTTGCATAGACATGAAGGGGGAAACTTCTATCCTGGTACTGGGGCATCACACGAG
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gtaagctgcccaaatctatgcatgtctgcacatcaattttggagtgttggatgca--gtaaattatttttgtgagttgaccttgtttgaacttattactgggagtcattgcatagGTATTGTACATATCCTTGCACAGACATGAGGGAGGAAACTTCTATCCCGGTACTGGAGCTGCTGATGAGMapped 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|37184636|gb|CF603990.1|CF603990EST: ATGTACATCACGGAAATGGCACACAAGAGATATTTGAGCAGAACAAATCG GTTTTGTATATATCCTTGCATAGACATGAAGGGGGAAA
genomic: ATGTACATCACGGAAATGGCACACAAGAGATATTTGAGCAGAACAAATCGgtgagtctct ... tattttttagGTTTTGTATATATCCTTGCATAGACATGAAGGGGGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattccccctatcaaaagatttttcaggtgttgatgggttggatctattttttagGTTTTGTATATATCCTTGCATAGACATGAAGGGGGAAACTTCTATCCTGGTACTGGGGCATCACACGAG
tgttgat putative branch site (score: 4)
tctatttttt putative PPT
tatcaaaagattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taactcatccttgttttttattgattctctatcaaatgaattgtttattccccctatcaaaagatttttcaggtgttgatgggttggatctattttttagGTTTTGTATATATCCTTGCATAGACATGAAGGGGGAAACTTCTATCCTGGTACTGGGGCATCACACGAG
- -ctcatcc
- - - - - - - - - - - - - - - - -aaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggttgg