Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcaccctatgaaggagtgggacacagaattctttctactaaattcaacatcgcagcatctaataagacctacacattgttttgaaccacccactccagAGGATAACAGAGAAGCAGAACAGGGTCTCGATAACCGACAGGATGTGGGCAAGGCTTCTGTCGTCGACCAACCAGCCGAGCTTCCTCTGCAACAAAGTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G816636_T02 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 3'ss of exon 13
gtaagtcaccc--tatgaaggagtgggacacagaattctttctactaaattcaacatc-gcagcat--ctaataagacctacacattgttttga-accacccactccagAGGATAACAGAGAAGCAGAACAGGGTCTCGATAACCGACAGGATGTGGGCAAGGCTTCTGTCGTCGACCAACCAGCCGAGCTTCCTCTGCAACAAAGTCA
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gtaagtcattcgctatagggcagttaaactttctgttaatacaaaaaaaaaaaaactctgctccactgctctccatactgat-tactgtcttatcactaaaattttcagAGGATCACAGAGAAGCAGAACAAAGTTTCAATTACTGATAGGATGTGGGCAAGACTTCTCTCCTCAACCAACCAGCCAAGTTTCCTCAGCAAGAAAGATG
upper sequence: GRMZM5G816636_T02 (Zea mays), 3'ss of exon 13
lower sequence: AT4G26270.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaagtcaccctatgaaggagtgggacacagaattctttctactaaattcaacatcgcagcatc-taataagacctacacattgttttgaaccacccactccagAGGATAACAGAGAAGCAGAACAGGGTCTCGATAACCGACAGGATGTGGGCAAGGCTTCTGTCGTCGACCAACCAGCCGAGCTTCCTCTGCAACAAAGTCA
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---catcatactgtcatcagttatcat-caccgttaaagtcatcatcctcatatcatcataatcatagtatcacttttatgtaaacatcatttttatgttacagAGGATAACGGAGAAACAGAACCATGTGGTGATCACAGACAGGATGTGGGCAAGGCTACTCTCTTCGACAAACCAGCCGAGTTTCTTGGGCCCCAAAGATG
upper sequence: GRMZM5G816636_T02 (Zea mays), 3'ss of exon 13
lower sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 12
-gtaagtcaccctatgaaggagtgggacacagaattctttctactaaattcaacatcgcagcatctaataagacctacacattgttttgaaccacccactccagAGGATAACAGAGAAGCAGAACAGGGTCTCGATAACCGACAGGATGTGGGCAAGGCTTCTGTCGTCGACCAACCAGCCGAGCTTCCTCTGCAACAAAGTCA
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aagaattcatggtgtcctctcttgaatgaatga--ttttgctcttaggttttgacacagaacagttgaggttacaaaacttttgtatttgactgat--gtgcagCGCATCAATGAGAGTCGGAACAAGGTTGTGATAACCGACAGGATGTGGGCAAGGCTCCTTTCGTCAACAAACCAGCCAAGCTTCCAGAACCCCAAAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaacatcgcagcatctaataagacctacacattgttttgaaccacccactccagAGGATAACAGAGAAGCAGAACAGGGTCTCGATAACCGACAGGATGTGGGCAAGGCTTCTGTCGTCGACCAACCAGCCGAGCTTCCTCTGCAACAAAGTCA
atctaat putative branch site (score: 3)
cccactcc putative PPT
atctaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcaccctatgaaggagtgggacacagaattctttctactaaattcaacatcgcagcatctaataagacctacacattgttttgaaccacccactccagAGGATAACAGAGAAGCAGAACAGGGTCTCGATAACCGACAGGATGTGGGCAAGGCTTCTGTCGTCGACCAACCAGCCGAGCTTCCTCTGCAACAAAGTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT