Sequence
atgc intronic sequence ATGC exonic sequence...cttattttggagtcagcatagcagaatgtgttaaccagcctgatagtgtcatgattggttcattgtcatctacatgctaagttaattaccgtttttgtagCATTACGGATGGTCAGGTGAATGCTGTTGAAGGTGAACTTTCCAAAGCTATGTTGGAGAACAACAAATGCTATTTGCTGGACTGTGGTGCTGAGGTATTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G21350.2 (Glycine max), 3'ss of exon 6
cttattttggagtcagcatagcag-aatgtgttaaccagc-ctgatagtgtcatgattggttcattgtcatctacatgctaagtta-attacc-gtttttgtagCATTACGGATGGTCAGGTGAATGCTGTTGAAGGTGAACTTTCCAAAGCTATGTTGGAGAACAACAAATGCTATTTGCTGGACTGTGGTGCTGAGGTATTT
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---atgtgttgattagcatatcaatagtttgcatatggtcactgacaatgctttattccaataactaaaatgaaga-ataacttcatatgacttgtcctgccagTATTGTTGATGTTGAGATCAAGCCTGTGGAAGGTGAACTTTCTAAATCACTGTTGGAAAACAACAAATGCTATTTACTGGACTGTGGTGCTGAGGTGTTT
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 5
cttattttggagtcagcatagcag-aatgtgttaaccagc-ctgatagtgtcatgattggttcattgtcatctacatgctaagttaattaccgtttttgtagCATTACGGATGGTCAGGTGAATGCTGTTGAAGGTGAACTTTCCAAAGCTATGTTGGAGAACAACAAATGCTATTTGCTGGACTGTGGTGCTGAGGTATTT
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atcatgtgttgattagcataacaatagtttgcatatggtcactgacaatactttattccgataactaaaatgaataacttcatatgact--tgtccttccagTATTGTTGATGGTGAGGTCAAGCCTGTGGAAGGTGAACTTTCTAAATCACTGTTGGAAAACAACAAATGCTATTTACTGGACTGTGGTGCCGAGATGTTT
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 7
cttattttggagtcagcatagcagaatgtgttaaccagcctgatagtgt---catgattggttcattgtcatctacatgctaagttaattaccgtttttgtagCATTACGGATGGTCAGGTGAATGCTGTTGAAGGTGAACTTTCCAAAGCTATGTTGGAGAACAACAAATGCTATTTGCTGGACTGTGGTGCTGAGGTATTT
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--gatttttcttttttagtttctgttta-gtttctctgttttatgatgtgtgcactatgcatttgagtttcttaatctggaggatatgaccttgttcctgcagTATTGCTGATGGTGAGGTCAAGCCTGTGGAAGGTGAACTTTCAAAATCACTGCTGGAGAACTACAAATGCTATCTATTGGACTGTGGTACTGAGGTATTT
upper sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G29280.1 (Glycine max), 3'ss of exon 6
cttattttggagtcagcatagcagaatgtgttaaccagcctgatagtgt---catgattggttcattgtcatctacatgctaagttaattaccgtttttgtagCATTACGGATGGTCAGGTGAATGCTGTTGAAGGTGAACTTTCCAAAGCTATGTTGGAGAACAACAAATGCTATTTGCTGGACTGTGGTGCTGAGGTATTT
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-ttagcagtatatagatttttctttttttgtt--tctgttttatgatatgtgcactatgcatttaagtttcttgatctggaggatatgaccttgtgcctgcagTATTGCTGATGGTGAGGCCAAGCCTGTGGAAGGTGAACTTTCAAAATCACTGCTGGAGAACTACAAATGCTATCTATTGGACTGTGGAGCTGAGGTATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtcatgattggttcattgtcatctacatgctaagttaattaccgtttttgtagCATTACGGATGGTCAGGTGAATGCTGTTGAAGGTGAACTTTCCAAAGCTATGTTGGAGAACAACAAATGCTATTTGCTGGACTGTGGTGCTGAGGTATTT
agttaat putative branch site (score: 4)
ccgttttt putative PPT
taagttaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttattttggagtcagcatagcagaatgtgttaaccagcctgatagtgtcatgattggttcattgtcatctacatgctaagttaattaccgtttttgtagCATTACGGATGGTCAGGTGAATGCTGTTGAAGGTGAACTTTCCAAAGCTATGTTGGAGAACAACAAATGCTATTTGCTGGACTGTGGTGCTGAGGTATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - catagca
- - - - - - - - - - - -gaatgtg
- - - - - - - - - - - - - - - - - ccagcct
- - - - - - - - - - - - - - - - - - - - - - - - - -tgattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cattgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgct