Sequence
atgc intronic sequence ATGC exonic sequencegtatgttactctaaccccaatgtttgtgctatatatttttgttccaaaacttgatttttttatgtcaggcaaactggcttttattttgaagggcaagtgccatgcaagaatttattaaataatttagattttcaaacatctcttgggttatgttacgaaaatggttaagtaattgattttttaactttgctgctcagATATTGTCAAAGGCAGACGATAACACTGTAATGGAAGCAGTTGACCCAGAGGTTTCTGTTACATGCATGGACTTAGCTCACGTCAGGAAAACCTTCCAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 25
lower sequence: GLYMA10G38730.1 (Glycine max), 3'ss of exon 26
gtatgttactctaaccccaatgtttgtgctatatatttttgttccaaaacttgatttttttatgtcaggcaaactggcttttattttgaagggcaagtgccatgcaagaatttattaaataatttagattttcaaacatctcttgggttatgttacgaaaatggttaagtaattgat---tttttaactttgctgctcagATATTGTCAAAGGCAGACGATAACACTGTAATGGAAGCAGTTGACCCAGAGGTTTCTGTTACATGCATGGACTTAGCTCACGTCAGGAAAACCTTCCAAC
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-------------------gtatgtgtattactataacatgcactaaatctgtattttggt---tcatattgattcacaaaaacataattgtggatatgc-atgttttgagtgaatagttttttcattttgtcaaatgcgtgtacaatcatgcta---atatacctaaattcttgactcattttttgcatgatttttcagATATTGTCCAAGGCAGATAACAACACTGTAATGGAAGCTGTGGATCCAGAGGTCTCTATTACCTGCACTGATCTGGCTCATGTCAAGAAGACCTTTCAGC
upper sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 25
lower sequence: AT5G62230.2 (Arabidopsis thaliana), 3'ss of exon 24
gtatgttactctaaccccaatgtttgtgctatatatttttgttccaaaacttgatttttttatgtcaggcaaactggcttttattttgaagggcaagtgccatgcaagaatttattaaataatttagattttcaaacatctct-tgggttatgttacgaaaatggttaagtaattga--ttttttaactttgctgctcagATATTGTCAAAGGCAGACGATAACACTGTAATGGAAGCAGTTGACCCAGAGGTTTCTGTTACATGCATGGACTTAGCTCACGTCAGGAAAACCTTCCAAC
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-----------------------------------------------------------------------------------------------------------------------gtatatgaat---caagaatcactatagattatgatctttgaaccttaaaagagttaacgttttttttttttatgttgcagATATTGTCAAAGGCTGATGATAATACTGTGATGGAAGCAGTTGATCCAGAGGTTACTGTGACTTGTATGGACTTGGGACATATCAGGAAGACATTTCAGC
upper sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 25
lower sequence: AT5G07180.1 (Arabidopsis thaliana), 3'ss of exon 26
gtatgttactctaaccccaatgtttgtgctatatatttttgttccaaaacttgatttttttatgtcaggcaaactggcttttattttgaagggcaagtgccatgcaagaatttattaaataatttagattttcaaacatctcttgggttatgttacgaaaatggttaagtaattgattttttaactttgctgct-cagATATTGTCAAAGGCAGACGATAACACTGTAATGGAAGCAGTTGACCCAGAGGTTTCTGTTACATGCATGGACTTAGCTCACGTCAGGAAAACCTTCCAAC
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--------------------------------------------------------------------------------------------------------------------gtatgaatttgagtataaagtgtttcacaagtttattcttggaaacaatttgata------tcattaacttttttgttgcagATTCTATCAAAGGCGGATGATAACACAGTAATGGAAGCTGTTGATGCAGAGGTCTCAGTGACTTGCATGGACTCAGGACACATCAAGAAAACATTTCAGCMapped 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|77587456|gb|DV222879.1|DV222879EST: TGCTGACAGGGAAGAAAGCTGTAGACAATGAATCAAATTTGCATCAACTG ATATTGTCAAAGGCAGATGATAACACTGTAATGGAAGCAGTTGACCCAGAA
genomic: TGCTGACAGGGAAGAAAGCTGTAGACAATGAATCAAATTTGCATCAACTGgtatgttact ... tgctgctcagATATTGTCAAAGGCAGACGATAACACTGTAATGGAAGCAGTTGACCCAGAG
EST:
gi|77586915|gb|DV222604.1|DV222604EST: TGCTGACAGGGAAGAAAGCTGTAGACAATGAATCAAATTTGCATCAACTG ATATTGTCAAAGGCAGATGATAACACTGTAATGGAAGCAGT
genomic: TGCTGACAGGGAAGAAAGCTGTAGACAATGAATCAAATTTGCATCAACTGgtatgttact ... tgctgctcagATATTGTCAAAGGCAGACGATAACACTGTAATGGAAGCAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgggttatgttacgaaaatggttaagtaattgattttttaactttgctgctcagATATTGTCAAAGGCAGACGATAACACTGTAATGGAAGCAGTTGACCCAGAGGTTTCTGTTACATGCATGGACTTAGCTCACGTCAGGAAAACCTTCCAAC
ttttaac putative branch site (score: 2)
ctttgct CT-rich tract
aaaatggttaagtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttactctaaccccaatgtttgtgctatatatttttgttccaaaacttgatttttttatgtcaggcaaactggcttttattttgaagggcaagtgccatgcaagaatttattaaataatttagattttcaaacatctcttgggttatgttacgaaaatggttaagtaattgattttttaactttgctgctcagATATTGTCAAAGGCAGACGATAACACTGTAATGGAAGCAGTTGACCCAGAGGTTTCTGTTACATGCATGGACTTAGCTCACGTCAGGAAAACCTTCCAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA