Sequence
atgc intronic sequence ATGC exonic sequence...ctcgaccgccgctcaccatggtaaggattacgctcgaggctgctccacgattttcgtatgttcccttttgctggtgttaatactgtatttgctactgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AC209215.4_FGT006 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G02070.1 (Glycine max), 3'ss of exon 1
----ctcgaccgccgctcac-catggtaaggattacgctcgaggctgctccacgattt--tcgtatgttcccttttgctggtgttaatact-------gtatttgctactgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGG
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gtacgtcgtcaatttcttactcgttttgaaatttaatctcgattctcttgcatcgttcggtacaattttttttcactctgatgcaaaaatctgcgtgcgtgtttacttgttcagATCATTCCTGAGAAGAACCGCAAGGAGATCTGCAAATACCTCTTCCAAG
upper sequence: AC209215.4_FGT006 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G37470.1 (Glycine max), 3'ss of exon 1
----ctcgaccgccgctcaccatggtaaggattacgctcgaggctgctccacgattt---tcgtatgttcccttttgct--ggtgttaatact-------gtatttgctactgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGG
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gtacgtcgtcaatttcttactcgtttggaatttaatctcgattcctttgcatcgtttcgttcattttttttttttcactctgatgcaaacatttgcgtgcgtgtttatttgttcagATCATCCCGGAGAAGAACCGCAAGGAGATCTGCAAATACCTCTTCCAAG
upper sequence: AC209215.4_FGT006 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA11G02410.3 (Glycine max), 3'ss of exon 1
ctcgaccgccgctcaccatggtaaggattacgctcgaggctgctccacgattttcgtatgttcccttttgctggtgttaatactgt----atttgctac-tgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGG
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------------gtatccgaacgaacttggtcctcttagctgtttcataggtaata-atggtggaatcagcttatgcaaatcctaatttgatttgttttgtgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG
upper sequence: AC209215.4_FGT006 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G43110.1 (Glycine max), 3'ss of exon 1
ctcgaccgccgctcaccatggtaag-gattacgctcgaggctgctccacgattttcgtatgttcccttttgctggtgttaatactgtatttgctactgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGG
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--------------------gtaaccgaacttggtcctcttagctctttcatacggtggaatcagcttatgcaaatcctaat-ttgatttgttttgtgcagATCATTCCCGAGAAGAACCGTAAAGAGATCTGCAAATACCTCTTCCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacgattttcgtatgttcccttttgctggtgttaatactgtatttgctactgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGG
tgttaat putative branch site (score: 3)
ttaatactgtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcgaccgccgctcaccatggtaaggattacgctcgaggctgctccacgattttcgtatgttcccttttgctggtgttaatactgtatttgctactgcagATCATCCCCAAGAAGAACCGCAATGAGATCTGCAAGTACCTCTTCAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - -gccgctc
- - - - - - - -ccatggt
- - - - - - - - - - - - - - - - - - - gctgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtattt