Sequence
atgc intronic sequence ATGC exonic sequencegtcctttgcatccttcactttctaaattgcatggataagcttttctcttcactgtttcagagtatctttttccaagattgttgggataattctttattgaattgaatgtacttaaggatttcttttgatttgttccagGTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACTTACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g02230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G08120.1 (Glycine max), 3'ss of exon 3
gtcctttgcatccttcactttctaaattgcatggataagcttttctcttcactgtttcagagtatctttttccaagattgttgggataattctttattgaattgaatgtacttaaggatttcttttgatttgttccagGTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACTTACAAG
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----------gtctctataattaggaacaaatttattggtaattggtatttctgtatgtatatatcttctttttatgttgattagt--gtttttcatttgttttagtgtttcta-------cttttaat--gttccagGTGATTCGGGTTATACCTTACAGTGCTGTCCAGCTTTTTGCTTATGAAATTTACAAG
upper sequence: Vv08s0007g02230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G42950.1 (Glycine max), 3'ss of exon 4
gtcctttgcatccttcactttctaaattgcatggataagcttttctcttcactgtttcagagtatctttttccaagattgttgggataattctttattgaattgaatgtacttaaggatttcttttgatttgttccagGTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACTTACAAG
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-------------------gtctgtacaataaggaaagaatgtatt----ggtatttctc--tatttatatctcataatattgaccggtcttttcatt--------tgtgtt--agtgtttcttctttaatattccagGTGATCCGTGTTGTACCTTACAGTGCTGTCCAGCTTTTTGCTTATGAGATTTATAAG
upper sequence: Vv08s0007g02230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G18140.1 (Glycine max), 3'ss of exon 3
gtcctttgcatccttcactttctaaattgcatggataagcttttctcttcactgtttcagagtatctttttccaagattgttgggataattctttattgaattgaatgtacttaaggatttcttttgatttgttccagGTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACTTACAAG
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-------------------gtctgtacaataaggaaagaatgtatt----ggtatttctg--tatttatatcacataatattgaccagtcttttcatt--------tgtgtt--agtgtttcttctttaatattccagGTGATTCGAGTTGTACCTTACAGTGCTGTCCAGCTTTTTGCTTATGAAATTTATAAG
upper sequence: Vv08s0007g02230.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G01500.1 (Arabidopsis thaliana), 3'ss of exon 3
gtcctttgcatccttcactttctaaattgcatggataagcttttctcttcactgtttcagagtatctttttccaagattgttgggataattctttattgaattgaatgtacttaaggatttcttttgatttgttccagGTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACTTACAAG
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-----------------------------------------gtacgtcacacaatttcttgcatccttttggaaagaatggtgttg-aattttgtagagt-ttgattgcacataat--cttagtctgaat-gttccagGTGATAAGGATTGTACCTTATAGCGCAGTCCAGTTGTTTGCATATGAAACATACAAGMapped 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|32249786|gb|CD715605.1|CD715605EST: TTGGAAAGGAAGAAGGACTTAAAGGGTACTGGAAAGGCAACCTTCCTCAG GTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACT
genomic: TTGGAAAGGAAGAAGGACTTAAAGGGTACTGGAAAGGCAACCTTCCTCAGgtcctttgca ... tttgttccagGTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACT
EST:
gi|32268229|gb|CD717388.1|CD717388EST: TTGGAAAGGAAGAAGGACTTAAAGGGTACTGGAAAGGCAACCTTCCTCAG GTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACT
genomic: TTGGAAAGGAAGAAGGACTTAAAGGGTACTGGAAAGGCAACCTTCCTCAGgtcctttgca ... tttgttccagGTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggataattctttattgaattgaatgtacttaaggatttcttttgatttgttccagGTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACTTACAAG
ttttgat putative branch site (score: 4)
tttgttcc CT-rich tract
attctttattgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcctttgcatccttcactttctaaattgcatggataagcttttctcttcactgtttcagagtatctttttccaagattgttgggataattctttattgaattgaatgtacttaaggatttcttttgatttgttccagGTGATACGTATCATACCTTACAGTGCCGTCCAGCTGTTTGCTTATGAAACTTACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT