Sequence
atgc intronic sequence ATGC exonic sequence...acatttgaggcgaatgggatatggaattttgtacagtgtttgtaatttgcccatttgagctggtaaattgctcacacaatatggggtgactttcttgtagGTGTGTGCAAGTGTTCCCTCGGATTCCAGTAACATGAGCGAGCTTGTGCAATGGAATGATCTCTATGGAGAAGGCGGATCAAGGAAAAAGACAACGCTAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G168228_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 3'ss of exon 27
-acatttgaggcgaatggga--tatggaattt-tgtacagtgtttgtaatt--tgcccatttgagc-tggtaaattgctcacacaatatggggtgactttcttgtagGTGTGTGCAAGTGTTCCCTCGGATTCCAGTAACATGAGCGAGCTTGTGCAATGGAATGATCTCTATGGAGAAGGCGGATCAAGGAAAAAGACAACGCTAA
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agtacgaaaactagttgtaaattatgcaatttataaccagcagttgttatccatgatcattgaaatacattatgttgctaactttgtatg-------tttgttatagGTCTGTGCAAGTGTGTCTTCGGATTCAACTAACATGAATGAACTTATTCAATGGAATGATCTTTATGGAGAAGGTGGATCAAGGAAAAAGACTACTCTAA
upper sequence: GRMZM2G168228_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 22
-acatttgaggcgaatgggatatggaattttgtacagtgtttgta-atttgcccatttgagctggtaaattgctcacacaatatggggtg-actttcttgtagGTGTGTGCAAGTGTTCCCTCGGATTCCAGTAACATGAGCGAGCTTGTGCAATGGAATGATCTCTATGGAGAAGGCGGATCAAGGAAAAAGACAACGCTAA
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taccttt---gtagacaaaattggttgtttttcatggtgatcatgtaattgctcaaagagtccttttcgtggtaattacattgcttgatgtatttttgtgcagGTGTGTGCAAGTGTGTCATCAGAGTCAACAAATATGAATGAGCTACTCCAATGGAATGACCTCTATGGAGAAGGAGGATCAAGAAAAATGAGATCTCTGA
upper sequence: GRMZM2G168228_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 26
acatttgaggcgaatgggatatggaattttgtacagtgtttgta-atttgcccatttgagctggtaaattgctcac-acaatatggggtg-actttcttgtagGTGTGTGCAAGTGTTCCCTCGGATTCCAGTAACATGAGCGAGCTTGTGCAATGGAATGATCTCTATGGAGAAGGCGGATCAAGGAAAAAGACAACGCTAA
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accttt---gtagacaaaattggttgtttttcatggtgatcatgtaattgctcgatagagtccttttagtggtaattacaatgtttgatgtattttgttgcagGTGTGTGCAAGCGTGTCATCAGAGTCAACAAATATGAATGAGCTACTCCAATGGAATGACCTCTATGGAGAAGGAGGATCAAGAAAAATGAGATCTCTGAMapped 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|211424427|gb|FK972464.1|FK972464EST: ATGATGTCCGTGCATTAAGAACAAGTGATTTCATACATGCGCATGAACAG GTGTGTGCAAGTGTTCCCTCGGATTCCAGTAACATGAGCGAGCTTGTGC
genomic: ATGATGTCCGTGCATTAAGAACAAGTGATTTCATACATGCGCATGAACAGgtatgatctt ... tttcttgtagGTGTGTGCAAGTGTTCCCTCGGATTCCAGTAACATGAGCGAGCTTGTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgcccatttgagctggtaaattgctcacacaatatggggtgactttcttgtagGTGTGTGCAAGTGTTCCCTCGGATTCCAGTAACATGAGCGAGCTTGTGCAATGGAATGATCTCTATGGAGAAGGCGGATCAAGGAAAAAGACAACGCTAA
tgctcac putative branch site (score: 2)
ctttcttgt putative PPT
taaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acatttgaggcgaatgggatatggaattttgtacagtgtttgtaatttgcccatttgagctggtaaattgctcacacaatatggggtgactttcttgtagGTGTGTGCAAGTGTTCCCTCGGATTCCAGTAACATGAGCGAGCTTGTGCAATGGAATGATCTCTATGGAGAAGGCGGATCAAGGAAAAAGACAACGCTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
acatttg
- - - - - - - - - - - - - - - - - - tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgagctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcacaca