Sequence
atgc intronic sequence ATGC exonic sequence...atactcttcatttcattgtcgcccaagttttttgtgatttaaggtctccctgtatttcattttcagagtctgttatggctcacatttgctgtacttgcagTGAACCCCAAGAAAGGTGATGCCTTGCTGTTCTTCAGTCTGCATCCTGATGCAACCACAGACCCAAGCAGCTTACATGGAAGTTGCCCTGTTATTGCGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G520535_T01 (Zea mays), 3'ss of exon 6
-----atactcttcatttcattgtcgcccaagttttttgtgatttaaggtctccctgtatttcattttcagagtctgttatggctcacatttgctgtacttgcagTGAACCCCAAGAAAGGTGATGCCTTGCTGTTCTTCAGTCTGCATCCTGATGCAACCACAGACCCAAGCAGCTTACATGGAAGTTGCCCTGTTATTGCGGG
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ggtatagtttctttagctcggcgctgcacatcatgtgagtagtacctt-ccaccatgcgcatttactctgctgtctatc-tgctgctggtttcct---tgtgcagTTAAACCGGTAAAGGGTGATGCCCTGCTGTTCTTCAGCCTCCATCCTGATGCAACGACAGACTCTGACAGCTTGCACGGTAGCTGCCCCGTAATCGAAGG
upper sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G168506_T02 (Zea mays), 3'ss of exon 7
-atactcttcatttcattgtcgcccaagttttttgtgatttaaggtctccctgtat-ttcattt--tcaga-gtctgttatggctcacatttgctgtacttgcagTGAACCCCAAGAAAGGTGATGCCTTGCTGTTCTTCAGTCTGCATCCTGATGCAACCACAGACCCAAGCAGCTTACATGGAAGTTGCCCTGTTATTGCGGG
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agcaggctttcttaccttggtactgca-catcacgcgagtaccttcctccatgcatattcactcactcggatgtctatc-tgctgctggtttcct---tctgcagTTAAACCGGTAAAGGGTGATGCCCTGCTGTTCTTCAGTCTCCACCCTGATTCAACAACAGACTCTGACAGCTTGCACGGTAGCTGCCCCGCCATCGAAGG
upper sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G02110.1 (Glycine max), 3'ss of exon 7
atactcttcatttcattgtcgcccaagttttttgtg-atttaaggtctccctgtatttcattttc-agagtctg----ttatggctcacatttg---ctgtacttgcagTGAACCCCAAGAAAGGTGATGCCTTGCTGTTCTTCAGTCTGCATCCTGATGCAACCACAGACCCAAGCAGCTTACATGGAAGTTGCCCTGTTATTGCGGG
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---------aatttctcgctactgatgtaatctaaacactggcattcctctcctgttttatgaccgaggatctaaattctaaccctttcttctgtttctgtcatttcagTAAAGCCTCAGAAGGGTGATGCCTTGTTGTTCTTCAGTCTCCATCTGGATGCAAGTACAGATACTAAGAGCTTGCATGGAAGCTGTCCAGTCATTGAGGG
upper sequence: Vv14s0066g02170.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G28480.1 (Arabidopsis thaliana), 3'ss of exon 7
------------------------------------------------------------------------------atactcttcatt-tcattgtcgcccaagttttttgtgatttaaggtctccctgtatttcattttcagagtctgttatggctcacatttgctgtacttgcagTGAACCCCAAGAAAGGTGATGCCTTGCTGTTCTTCAGTCTGCATCCTGATGCAACCACAGACCCAAGCAGCTTACATGGAAGTTGCCCTGTTATTGCGGG
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gtaagatcactgtatatagcttgcttgatatagaatactgtatcctgaacatgcgtttggcttaattgtgaaagctcaacacaaatggggattgtagtagtttgattaaatgataatgaaaggtataactatttttccaaatggtatattgctctatctgatttatg-tatctttgcagTGAAACCGAGGAAAGGGGATGCATTACTGTTCTTCAATCTTCACCCAAATGCAACCACAGATTCAAATAGCTTACATGGAAGCTGTCCAGTGGTTGAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctccctgtatttcattttcagagtctgttatggctcacatttgctgtacttgcagTGAACCCCAAGAAAGGTGATGCCTTGCTGTTCTTCAGTCTGCATCCTGATGCAACCACAGACCCAAGCAGCTTACATGGAAGTTGCCCTGTTATTGCGGG
ggctcac putative branch site (score: 3)
tatttcatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atactcttcatttcattgtcgcccaagttttttgtgatttaaggtctccctgtatttcattttcagagtctgttatggctcacatttgctgtacttgcagTGAACCCCAAGAAAGGTGATGCCTTGCTGTTCTTCAGTCTGCATCCTGATGCAACCACAGACCCAAGCAGCTTACATGGAAGTTGCCCTGTTATTGCGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- -ctcttca
- - - - - - - - - tcgccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctcaca