Sequence
atgc intronic sequence ATGC exonic sequencegtaaggttgcttgcttgctcgctcgcatggttcgccggctaactgtgtgccgcgtaagcgtacatatatactaccaaacagCAACATCTACTACATCAACGACAAGCTGGACAAGCGGACGTGGACGTACATCTTCGGCGCCTGCTGCGCCACGACGGTGTTCATCCCGTCGTTCCACAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G149481_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g14080.1 (Oryza sativa), 3'ss of exon 3
-----------------gtaaggttgct--tgcttgctcgctcgcatggttcgccggctaactgtgtgccgcgtaagcgtacatatatactaccaaacagCAACATCTACTACATCAACGACAAGCTGGACAAGCGGACGTGGACGTACATCTTCGGCGCCTGCTGCGCCACGACGGTGTTCATCCCGTCGTTCCACAAC
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gtacgtacctgcagctactaaagccactgaagtctgaatgtactcattagtatctgttttagcgtctgttttat--gtgtaca-atgtgtgagtg--cagCAACATCTACTACATCAACGACAAGCTGGACAAGAGGACGTGGACCTACATCTTCGGCGCGTGCTGCGCGACGACGGTGTTCATCCCGTCGTTCCACAAC
upper sequence: GRMZM2G149481_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA11G11310.1 (Glycine max), 3'ss of exon 3
-----------gtaaggttgcttgcttgctcgctcgca---tggttcgccggc-taactgtgtgccgcgtaagcgtacatata----tactaccaaacagCAACATCTACTACATCAACGACAAGCTGGACAAGCGGACGTGGACGTACATCTTCGGCGCCTGCTGCGCCACGACGGTGTTCATCCCGTCGTTCCACAAC
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aagacaaggaaccaacatcacatgcatgtcccataataaccttacctgctgaaacaattcattggggtgtgagtgtgaattttgttttaatgttgttcagCAACATATATTACATAAATGACAACCTGGACAAGAGGACTTGGACTTACATCTTCGGAGCTTGCTGTGCCACCACTGTCTTTATTCCTTCCTTTCACAAC
upper sequence: GRMZM2G149481_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv18s0001g03540.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------gtaaggttgcttgcttgctcgctcgcatggttcgccggctaac---tgtgtgccgcgtaagcgtacatatata-ctaccaa------acagCAACATCTACTACATCAACGACAAGCTGGACAAGCGGACGTGGACGTACATCTTCGGCGCCTGCTGCGCCACGACGGTGTTCATCCCGTCGTTCCACAAC
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gtaaacccaaaaggggaaaggaaaaatcattacaatgtacattatatttctgtttggacagacgaatacatcatgtatacatactggttaatttttcctcaatttccattgatatgctgcagCAACATCTACTACATAAATGACAATTTCGACAAGAGAACTTGGACGTACATCTTCGGCGCCTGCTGTGCTACGACCGTTTTCATTCCTTCATTCCATAAT
upper sequence: GRMZM2G149481_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv03s0038g02140.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------------------------------------------------------------------gtaaggttgcttgcttgctcgctcgcatggttcgccggctaactgtgtgccgcgtaagcgtacatatatactaccaaacagCAACATCTACTACATCAACGACAAGCTGGACAAGCGGACGTGGACGTACATCTTCGGCGCCTGCTGCGCCACGACGGTGTTCATCCCGTCGTTCCACAAC
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gcatctccctctctccctccctatcctcctcctactactactctctctctctctctctctctttctctgtctcttgttttttcttcacccaccacatttttttttcctttctttacaataaacaaagatctgaggcattttctgcaactgggcatgtcgtttgttg--cagCAACATATATTACATAAATGATAATCTGGACAAGAGGACATGGACTTACATCTTCGGAGCCTGCTGTGCCACCACAGTCTTTATTCCTTCATTCCACAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggttcgccggctaactgtgtgccgcgtaagcgtacatatatactaccaaacagCAACATCTACTACATCAACGACAAGCTGGACAAGCGGACGTGGACGTACATCTTCGGCGCCTGCTGCGCCACGACGGTGTTCATCCCGTCGTTCCACAAC
ggctaac putative branch site (score: 2)
tacatatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggttgcttgcttgctcgctcgcatggttcgccggctaactgtgtgccgcgtaagcgtacatatatactaccaaacagCAACATCTACTACATCAACGACAAGCTGGACAAGCGGACGTGGACGTACATCTTCGGCGCCTGCTGCGCCACGACGGTGTTCATCCCGTCGTTCCACAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC