Sequence
atgc intronic sequence ATGC exonic sequence...ttgtttgccagtttctacttcaaagctgtgatttgaggaactttgtgaacaaagggcctgattcaccttgacaactgacaaatgctttctacaagtgcagTATGGACACCCAAGTGAAGCTTGCTGTTGTGGTGAAGGTGATGGGAAGGACCGGCTCCAGGGGTCAGGTTACCCAGGTCAGAGTGAAGTTCTTGGATGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G124143_T03 (Zea mays), 3'ss of exon 1
lower sequence: AT5G03850.1 (Arabidopsis thaliana), 3'ss of exon 1
ttgtttgccagtttctacttca--aagctgtgatttgaggaactttgtgaacaaagggcctgattcaccttgacaactgacaaatgctttctacaagtgcagTATGGACACCCAAGTGAAGCTTGCTGTTGTGGTGAAGGTGATGGGAAGGACCGGCTCCAGGGGTCAGGTTACCCAGGTCAGAGTGAAGTTCTTGGATGAC
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ctgtaaagttgattgctttacatgaaactgtgtactgattgtgtatgcatttgattga--tgttttaatgtgaattttcatggttttggttgattgaatcagAATGGATTCTCAGATCAAGCACGCTGTGGTGGTTAAGGTCATGGGTAGGACTGGTTCAAGGGGTCAGGTTACTCAGGTTCGAGTGAAGTTTACCGACTCT
upper sequence: GRMZM2G124143_T03 (Zea mays), 3'ss of exon 1
lower sequence: AT3G10090.1 (Arabidopsis thaliana), 3'ss of exon 1
ttgtttgccagtttctacttcaaagctgtgatttgaggaactttgtgaaca---aagggcctgattcaccttgacaactgacaaatgct-ttctacaagtgcagTATGGACACCCAAGTGAAGCTTGCTGTTGTGGTGAAGGTGATGGGAAGGACCGGCTCCAGGGGTCAGGTTACCCAGGTCAGAGTGAAGTTCTTGGATGAC
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----tatacagtcttgattcaaatgtgaacaattctctttttctaaggattttcacttcttttgtaaaatttggtctctgaatgtttttgttttgttgaatcagAATGGATTCTCAGATCAAGCACGCTGTTGTAGTGAAAGTGATGGGAAGGACTGGATCAAGGGGTCAAGTGACTCAGGTTAGAGTGAAGTTCACTGACTCG
upper sequence: GRMZM2G124143_T03 (Zea mays), 3'ss of exon 1
lower sequence: Vv08s0007g07210.t01 (Vitis vinifera), 3'ss of exon 1
ttgtttgccagtttctacttcaaagctgtgatttgaggaactttgtgaacaaagg-----gcctgattcacct---tgacaactgacaaatgctttctaca--agtgcagTATGGACACCCAAGTGAAGCTTGCTGTTGTGGTGAAGGTGATGGGAAGGACCGGCTCCAGGGGTCAGGTTACCCAGGTCAGAGTGAAGTTCTTGGATGAC
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-----aatgagtttgcttttatagaacttgaaaggaaaaaccaattaaatgaaaaatggtgcttagtatttatgaattataaccagcaattttctttggcagcagTGCGAAATGGATGCCGGGGTGAAGCATGCTGTGGTGGTGAAAGTTATGGGTCGAACTGGATCAAGGGGTCAGGTGACACAGGTGAGAGTGAAGTTTTTGG----- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaacaaagggcctgattcaccttgacaactgacaaatgctttctacaagtgcagTATGGACACCCAAGTGAAGCTTGCTGTTGTGGTGAAGGTGATGGGAAGGACCGGCTCCAGGGGTCAGGTTACCCAGGTCAGAGTGAAGTTCTTGGATGAC
aactgac putative branch site (score: 2)
ctttctac putative PPT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtttgccagtttctacttcaaagctgtgatttgaggaactttgtgaacaaagggcctgattcaccttgacaactgacaaatgctttctacaagtgcagTATGGACACCCAAGTGAAGCTTGCTGTTGTGGTGAAGGTGATGGGAAGGACCGGCTCCAGGGGTCAGGTTACCCAGGTCAGAGTGAAGTTCTTGGATGAC
-tgtttgc
- - - - - - - - - - - - - tgtgatt
- - - - - - - - - - - - - - - - - - - - - - - gaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctttc