Sequence
atgc intronic sequence ATGC exonic sequence...tactgctttgtggttttagtttgtaggatggtatagaataactttgctcttatactatgacttattggactgatttattattcctgcccacaaatctcagGAAATCAAACAGTTGAAAGACTTCAGCATATATTTGCTTCATCAAGTCACACATATGGTGGCTTGACTCTGGATTTACATTGTAATCGATTGGGTCCAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G472023_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os02g54170.1 (Oryza sativa), 3'ss of exon 2
----------------------------------------------------------------tactgctttgtggttttagtttgtaggatggtatagaataactttgctcttatactatgacttattggactgatttattat---------tcctgcccacaaatctcagGAAATCAAACAGTTGAAAGACTTCAGCATATATTTGCTTCATCAAGTCACACATATGGTGGCTTGACTCTGGATTTACATTGTAATCGATTGGGTCCAAC
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gtatgctttttccaatatatctctttcttttcctagtttgtcttatcttatgtaatctacgcaccaatgatttggtggcatcgca-gaaagccagttcaagctaaatgtgtgtgtaccatattaattcctctatgcttttacaatgactaaagtttatgttcacgaactgcagGAAACCAAACAATTGAGAGGCTTCAACAAATATTTTCTTCATCAAGCCAAACATATGGTGGCTTGACACTGGATTTACATTGTAATCGATTTGGTCCAAC
upper sequence: GRMZM2G472023_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os02g54280.1 (Oryza sativa), 3'ss of exon 12
-----------------------------------------------------------tactgctttgtggttttagtttgtaggatggtatagaataactttgctcttatactatgacttattggactgatttattat---------tcctgcccacaaatctcagGAAATCAAACAGTTGAAAGACTTCAGCATATATTTGCTTCATCAAGTCACACATATGGTGGCTTGACTCTGGATTTACATTGTAATCGATTGGGTCCAAC
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gtatgctttttccagtatatctgtttcttctcctagtttgtcttatgtaatctatgcaccaatgatttggcgacatcaca-gaaagccagttcaagctaaatgtgtgtgtatcatattaattcctctatgctcttacaatgactaaagtttatgttcacgaactgcagGAAACCAAACAATTGAGAGGCTTCAACAAATATTTTCTTCATCAAGCCAAACATATGGTGGCTTGACACTGGATTTACATTGTAATCGATTTGGTCCAAC
upper sequence: GRMZM2G472023_T02 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA08G15560.1 (Glycine max), 3'ss of exon 12
tactgctttgtggttttagtttgtaggatggtatagaataactttgc-tcttatactatgacttattggactgatttattattcct----gcccacaa-atctcagGAAATCAAACAGTTGAAAGACTTCAGCATATATTTGCTTCATCAAGTCACACATATGGTGGCTTGACTCTGGATTTACATTGTAATCGATTGGGTCCAAC
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------tttgaaaactaaaaccatgaaaagaattaaaatagataaaaatataatgtgggaatctattgaatagttttagccttttattgagttgataatattttagGAAATGGAACAATCGAGAAACTGCAAAAGGTGTTCACAGCATCAGGACAATCTTATGGTGGCTTAACTCTGGATTTGCATTGCAATCGATTTGGCCCAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctcttatactatgacttattggactgatttattattcctgcccacaaatctcagGAAATCAAACAGTTGAAAGACTTCAGCATATATTTGCTTCATCAAGTCACACATATGGTGGCTTGACTCTGGATTTACATTGTAATCGATTGGGTCCAAC
gactgat putative branch site (score: 3)
actgatttattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tactgctttgtggttttagtttgtaggatggtatagaataactttgctcttatactatgacttattggactgatttattattcctgcccacaaatctcagGAAATCAAACAGTTGAAAGACTTCAGCATATATTTGCTTCATCAAGTCACACATATGGTGGCTTGACTCTGGATTTACATTGTAATCGATTGGGTCCAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG