Sequence
atgc intronic sequence ATGC exonic sequence...ggtatctgtccatattttctatttccctcatgtgcgaggtgtttgattcatttgtgtttgtactttggaatcttattttaaaatttgatactatttgcagGGTGTGAAGCGTACAACCTTGGAACCGGAAGAGGTACATCTGTGCTGGAGATTGTTAAAGCATTTGAGAAGGCTTCTGGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G469523_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g28730.1 (Oryza sativa), 3'ss of exon 6
ggtatctgtccatattttctatttccctcatgtgcgaggtgtttga-ttcatttgtgtttgtactttggaatcttattttaaaatttgatactatttgcagGGTGTGAAGCGTACAACCTTGGAACCGGAAGAGGTACATCTGTGCTGGAGATTGTTAAAGCATTTGAGAAGGCTTCTGGGAAG
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ctaatttattgttcttcttgggcaacatgaaactagagggattggactttatttatttatttttatttgaaccatgttttgaactttattg-tacttgcagGGTGTGAAGCATACAACCTTGGAACTGGTAAAGGTACCTCTGTGCTGGAGATAGTCAAGGCATTTGAGAAGGCTTCTGGGAAG
upper sequence: GRMZM2G469523_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT1G64440.1 (Arabidopsis thaliana), 3'ss of exon 6
---ggtatctgtccatattttc-tatttccctcatgtgcgaggtgtttgattcatttgtgtttgtactttggaatcttattttaaaatttgatactatttgcagGGTGTGAAGCGTACAACCTTGGAACCGGAAGAGGTACATCTGTGCTGGAGATTGTTAAAGCATTTGAGAAGGCTTCTGGGAAG
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gtatgcttttcttcttcttttcataagtacctcattgtctcgacaatacatatccgcttatttatacaaacaagctcaactgtctgatttggctgttgtgctagGTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATG
upper sequence: GRMZM2G469523_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv02s0025g01580.t01 (Vitis vinifera), 3'ss of exon 6
----ggtatctgtccatattttctatttccctcatgtgcgaggtgtttgattcatttgtgtttgtactttggaatcttattttaaaatttgata-ctatttgcagGGTGTGAAGCGTACAACCTTGGAACCGGAAGAGGTACATCTGTGCTGGAGATTGTTAAAGCATTTGAGAAGGCTTCTGGGAAG
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ctcgagcaaatggaagtaaaacttgtcgacattgatttt----catttgatacctaactgctaaaacttgtaaacattgattttca-tttgatatctaactgcagGCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcatttgtgtttgtactttggaatcttattttaaaatttgatactatttgcagGGTGTGAAGCGTACAACCTTGGAACCGGAAGAGGTACATCTGTGCTGGAGATTGTTAAAGCATTTGAGAAGGCTTCTGGGAAG
atttgat putative branch site (score: 5)
aatcttattttaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtatctgtccatattttctatttccctcatgtgcgaggtgtttgattcatttgtgtttgtactttggaatcttattttaaaatttgatactatttgcagGGTGTGAAGCGTACAACCTTGGAACCGGAAGAGGTACATCTGTGCTGGAGATTGTTAAAGCATTTGAGAAGGCTTCTGGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - catgtgc
- - - - - - - - - - - - - - - - - - - - - -tgattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgt