Sequence
atgc intronic sequence ATGC exonic sequence...tcagagggagtactctccaaacattttgcattccaatacttctctgattttttttgttcagaactttgaatcttatctttaaaatatgccaacatatcagATTAAAGGTGAAGCTAATATATCATATATATGCTCACGCTATTATCGTGCTCCTGAGCTCATATTTGGTGCAACTGAATACACAACATCTATTGATATAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os06g35530.1 (Oryza sativa), 3'ss of exon 6
tcagagggagtactctcca---aacattttgcattccaa--tacttctctgattttttttgttcag----aactttgaatcttatctttaaaatatgccaacatatcagATTAAAGGTGAAGCTAATATATCATATATATGCTCACGCTATTATCGTGCTCCTGAGCTCATATTTGGTGCAACTGAATACACAACATCTATTGATATAT
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------acaatcctcttgatagaaaatggttctatacagcctatccataggttctttcttgtccagttctactttttaatactgtatttaaa---tgccaaactgccagATTAAAGGTGAAGCAAATATATCTTACATATGCTCACGTTACTATCGTGCTCCTGAGCTCATATTTGGTGCAACTGAGTACACAACATCAATTGATATAT
upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 5
lower sequence: PP1S52_55V6.1 (Physcomitrella patens), 3'ss of exon 6
tcagagggagtactctccaaacattttgcattccaatacttctctgattttttttgttcagaactttgaatcttatctttaaaatatgccaacatatcagATTAAAGGTGAAGCTAATATATCATATATATGCTCACGCTATTATCGTGCTCCTGAGCTCATATTTGGTGCAACTGAATACACAACATCTATTGATATAT
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gagtctgcagtggttgctcataatatggaaattgtctcgtgcggtattcagttgaatgcgtgggtgcagcattgatcatagtgagatttgagttgtgcagGTGAAAGGGGAGCCTAATATTTCGTACATTTGTTCACGATATTACCGTGCTCCCGAGCTGATATTTGGAGCTACAGAATACACAACTGCGATTGACATAT
upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 5
lower sequence: PP1S74_168V6.1 (Physcomitrella patens), 3'ss of exon 5
--tcagagggagtactctcca--aacattttgcattccaatacttctctgattttttttgttcagaactttgaatcttatctttaaaatatgccaacatatcagATTAAAGGTGAAGCTAATATATCATATATATGCTCACGCTATTATCGTGCTCCTGAGCTCATATTTGGTGCAACTGAATACACAACATCTATTGATATAT
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agtagtgggtaacacatggcatgaataatgtcttctccgctatcgagttgaatatttgagtggagaaagtggcg----acactgagaattcgagtactgtgcagGTGAAAGGGGAACCTAACATCTCGTATATCTGTTCACGGTATTACCGTGCTCCTGAGCTGATATTTGGAGCGACGGAATACACCACTGCGATAGACATAT
upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 5
lower sequence: EFJ07923 (Selaginella moellendorffii), 3'ss of exon 7
tcagagggagtactctccaaacattttgcattccaatacttctctgattttttt-tgttcagaactttgaatcttatctttaaaatatgccaacatatcagATTAAAGGTGAAGCTAATATATCATATATATGCTCACGCTATTATCGTGCTCCTGAGCTCATATTTGGTGCAACTGAATACACAACATCTATTGATATAT
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-----gtgggtgct-tacaaata----ggatccttggaattcagcagctgatttgcgtttcctgcttt---tcttggc---aaaaca---------aacagGTGAAAGGAGAGCCCAACATATCGTATATCTGTTCCCGTTATTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCT
upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 5
lower sequence: EFJ07216 (Selaginella moellendorffii), 3'ss of exon 7
tcagagggagtactctccaaacattttgcattccaatacttctctgattttttttgttcagaactttgaatcttatctttaaaatatgccaacatatcagATTAAAGGTGAAGCTAATATATCATATATATGCTCACGCTATTATCGTGCTCCTGAGCTCATATTTGGTGCAACTGAATACACAACATCTATTGATATAT
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---------------------gtgggtgcttacaaataggatccttggaattcagcagctgatttgcgtttcctgctttt----cctggcaaaacaacagGTGAAGGGAGAGCCCAACATATCGTATATCTGTTCCCGTTACTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|211363839|gb|FL067525.1|FL067525EST: CTCTTTCCCACCAAGTCAAGGTTTGTGACTTCGGGAGTGCTAAAATCTTG ATTAAAGGTGAAGCTAATATATCATATATATGCTCACGCTATTATCGTGCT
genomic: CTCTTTCCCACCAAGTCAAGGTTTGTGACTTCGGGAGTGCTAAAATCTTGgtatgtacat ... aacatatcagATTAAAGGTGAAGCTAATATATCATATATATGCTCACGCTATTATCGTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattttttttgttcagaactttgaatcttatctttaaaatatgccaacatatcagATTAAAGGTGAAGCTAATATATCATATATATGCTCACGCTATTATCGTGCTCCTGAGCTCATATTTGGTGCAACTGAATACACAACATCTATTGATATAT
ctctgat putative branch site (score: 4)
tttgaatcttatcttt 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 |
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tcagagggagtactctccaaacattttgcattccaatacttctctgattttttttgttcagaactttgaatcttatctttaaaatatgccaacatatcagATTAAAGGTGAAGCTAATATATCATATATATGCTCACGCTATTATCGTGCTCCTGAGCTCATATTTGGTGCAACTGAATACACAACATCTATTGATATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA