Sequence
atgc intronic sequence ATGC exonic sequencegtaagaataattttatgtcacttttttcctttcaggagcaccttacactattatccatgaggttagttgctcattgttgatgcatcgaacaatttttttgaattcagTTGAAGTATCATGACACTGGAAAAGAGAAAGAGTGCTTACCACAGGTTGGTCAGTGGAACATGGTAAACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G079080_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 9
gtaagaataattttatgtcacttttttcctttcaggagcaccttacactattatccatga--ggttagttgctcattgttgatgcatcgaaca----atttttttgaattcagTTGAAGTATCATGACACTGGAAAAGAGAAAGAGTGCTTACCACAGGTTGGTCAGTGGAACATGGTAAACAAG
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-------------------------------gtatgatttgcctttgttaatctcagtagttggctaactgctctcagctaataatttgggtatgaaattttgtggctttcagCTGAAATATCATGATACTGGGAAGGAAAAGGAGTGCTTGCCACAAGTTGGTCAGTGGAACATGGTGAACAAG
upper sequence: GRMZM2G079080_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA04G21450.1 (Glycine max), 3'ss of exon 10
gtaagaataattttatgtcacttttttcctttcaggagcaccttacactattatccatgaggttagttgctcattgttgatgcatcgaacaatttttttgaattcagTTGAAGTATCATGACACTGGAAAAGAGAAAGAGTGCTTACCACAGGTTGGTCAGTGGAACATGGTAAACAAG
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gtaatt-tgatcataattaattaaattgtttacaaatgttgtttgctttagcagtttttccattatgattacattat--at---tttggctcttcttgtccctaaagTTGAAATATCACGACACTGGAAGAGAGAAAGAATACTTGCCACAAGTTGGTCAGTGGAATATGATGAACAAG
upper sequence: GRMZM2G079080_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA06G23920.1 (Glycine max), 3'ss of exon 9
gtaagaataattttatg--tcacttttttcctttcaggagcaccttacactattatccatgaggttagttgctcattgttgatgcatcgaacaatttttttgaattcagTTGAAGTATCATGACACTGGAAAAGAGAAAGAGTGCTTACCACAGGTTGGTCAGTGGAACATGGTAAACAAG
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---gtaatcatctcataattaattaaattgtttacaaatgttgtttgcttttgcacttttgccgtta--tgcttatattatat---tttggctcttcttgtccctttagTTGAAATATCATGACACTGGAAGAGAGAAAGAATACTTGCCACAAGTTGGTCAGTGGAATATGATGAACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atccatgaggttagttgctcattgttgatgcatcgaacaatttttttgaattcagTTGAAGTATCATGACACTGGAAAAGAGAAAGAGTGCTTACCACAGGTTGGTCAGTGGAACATGGTAAACAAG
tgttgat putative branch site (score: 4)
ttttttt putative PPT
aacaatttttttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaataattttatgtcacttttttcctttcaggagcaccttacactattatccatgaggttagttgctcattgttgatgcatcgaacaatttttttgaattcagTTGAAGTATCATGACACTGGAAAAGAGAAAGAGTGCTTACCACAGGTTGGTCAGTGGAACATGGTAAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA