Sequence
atgc intronic sequence ATGC exonic sequence...ttcactattcatcgtccatgcgctctttattcttgcatttgatgaatggctggtacacgtttcctgatccactgacctccgatctaaataatgcccgtagCTGAGCCACTACGAGAAGGAGCTGGAGGAGATGAAGCACATGTCGAGGCAGGAGTTCATTGCACACCTGAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G399072_T03 (Zea mays), 3'ss of exon 4
lower sequence: PP1S131_131V6.1 (Physcomitrella patens), 3'ss of exon 4
-----------------------------------------------------ttcactattcatcgtccatgcgctctttat-tcttgcatttgatgaatggctggtac-acgtttcctgatccactgacctccgat--ctaaataatgcccg-tagCTGAGCCACTACGAGAAGGAGCTGGAGGAGATGAAGCACATGTCGAGGCAGGAGTTCATTGCACACCTGAGAAG
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gtatgtcatagaacgtgtgccctcatgtcattttgctgcaagtaaatgtgtccacaactgttctgagcttgatgacaaggaatgtggtgggtgtgatgcttagtagttctgaggaatggtgcctcatgtacgtggaatggtggaatgttgtgcggcagCTTGATACATACGAACAAGAGCTGGAGGAGATGAAGAACATGTCTCGGCAGGAGTATGTTGCCTCGTTGAGAAG
upper sequence: GRMZM2G399072_T03 (Zea mays), 3'ss of exon 4
lower sequence: PP1S66_255V6.1 (Physcomitrella patens), 3'ss of exon 4
-ttcactattcatcgtcc------atgcgctctttatt--cttgcatttgatg-----aatggctggtacacgtt---tcctgatccactgacctccgatc--taaataa-tgcccg-tagCTGAGCCACTACGAGAAGGAGCTGGAGGAGATGAAGCACATGTCGAGGCAGGAGTTCATTGCACACCTGAGAAG
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gtacgtgatgagtggtgtggtgagatggggtttgaggcggttgacagttgaggggcggagtggcagggatgggttgggtgcggtgctgatgaccgtggaatggtggatgggtgtgcaacagTTGAGTACGTATGAGGCGGAGCTGGAGGAGATGAAGAACATGTCTCGGCAGGAGTATGTGGCGTCGTTGAGAAG
upper sequence: GRMZM2G399072_T03 (Zea mays), 3'ss of exon 4
lower sequence: PP1S131_139V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------------------------------------------------ttcactattcatcgtc----catgcgct---ctttattcttgcatttgatgaatggctggtacacgtttcctgatccactgacctccgatctaaataatgcccg-tagCTGAGCCACTACGAGAAGGAGCTGGAGGAGATGAAGCACATGTCGAGGCAGGAGTTCATTGCACACCTGAGAAG
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gtaagtcatgaatcgtgtgccgtcatgtcattctgccgctaattaatgtgtccacaagtattctgagcttgacgccaaggcatgtggcgagcgtgatgctctgagcttagcagtt-ctgaggaacggtgcctcatgcacgtggaatgg--tggaatgttgtgcgacagCTTGGTACATATGAAAAAGAGCTGGAGGAGATGAAGAACATGTCTCGGCAGGAGTATGTGGCCTCGTTGAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggctggtacacgtttcctgatccactgacctccgatctaaataatgcccgtagCTGAGCCACTACGAGAAGGAGCTGGAGGAGATGAAGCACATGTCGAGGCAGGAGTTCATTGCACACCTGAGAAG
atctaaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcactattcatcgtccatgcgctctttattcttgcatttgatgaatggctggtacacgtttcctgatccactgacctccgatctaaataatgcccgtagCTGAGCCACTACGAGAAGGAGCTGGAGGAGATGAAGCACATGTCGAGGCAGGAGTTCATTGCACACCTGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC