Sequence
atgc intronic sequence ATGC exonic sequencegtacactactacaaaagattacatttattgatactgcctctcccccctaatgattatctaaatatttccttcattgcatttcagGATTCATTCGAGGATGACAAATCAAAAATCCTGATGATTCTGTGTGCTAGTCCTGACCCAAAGGAACTGCACAAGACAGTTTCTACTTTGGAATATGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G150984_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g56540.1 (Oryza sativa), 3'ss of exon 4
gtacactactacaaaagattacatttattgatactgcctctcccccctaa-------tgattatctaaatattt-----ccttcattgcatttcagGATTCATTCGAGGATGACAAATCAAAAATCCTGATGATTCTGTGTGCTAGTCCTGACCCAAAGGAACTGCACAAGACAGTTTCTACTTTGGAATATGGTG
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gtacaagattctaaaatttcacattcctcgatacaaatttatactgtaaaattaaagctgctaacgtaatgcctacgatcttccatgaattttcagGATTCATTTGAGGATGACAAATCAAAAATCTTGATGATTCTCTGTGCAAGTCCTGACCCAAAGGAATTGCACAAGACAGTTTCTACATTGGAGTATGGTG
upper sequence: GRMZM2G150984_T02 (Zea mays), 3'ss of exon 4
lower sequence: PP1S34_181V6.1 (Physcomitrella patens), 3'ss of exon 5
------------------------------------------------------------gtacacta-ctacaaaagattacatttattgat-actgcctctcccccctaatgattatctaaatattt---ccttcattgcatttcagGATTCATTCGAGGATGACAAATCAAAAATCCTGATGATTCTGTGTGCTAGTCCTGACCCAAAGGAACTGCACAAGACAGTTTCTACTTTGGAATATGGTG
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gtgaaattagactcgataatgcttcagttttagacttatcctcaaagtctatgatgtcttggactttatccagcttaagttgtctccattaaccgctcacatcttcatctcatgcctggctgtttatcgtaacctgtattgtgcaatagGATTCATTCGAGGATGACAGAGCCAAGATCCTGATGATTTTATGTGCAAGTCCCGACCTCCGGGACCTCCACAAAACTATATGCACCTTGGAGTACGGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatactgcctctcccccctaatgattatctaaatatttccttcattgcatttcagGATTCATTCGAGGATGACAAATCAAAAATCCTGATGATTCTGTGTGCTAGTCCTGACCCAAAGGAACTGCACAAGACAGTTTCTACTTTGGAATATGGTG
atctaaa putative branch site (score: 3)
tttccttcatt putative PPT
taatgattatctaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacactactacaaaagattacatttattgatactgcctctcccccctaatgattatctaaatatttccttcattgcatttcagGATTCATTCGAGGATGACAAATCAAAAATCCTGATGATTCTGTGTGCTAGTCCTGACCCAAAGGAACTGCACAAGACAGTTTCTACTTTGGAATATGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA