Sequence
atgc intronic sequence ATGC exonic sequencegtaacaaatatttgagtcatcctctttgatacaatatatagttgggtgttcgtgttctgtaatgaacaacagtttactcaatacttcgagagaaagttttcttgtgaaatacatgcaggtctctaaagagacaatgtctgttttctgtgtctgcctgcagcttaccccattataatattttgcagGTGAGACTTTGTAGAGAAAAAGCTACATCCAATGTGTATGCAATGAAAAAGCTTAAGAAGTCCGAAATGTTACGAAGAGGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G049088_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g19290.1 (Oryza sativa), 3'ss of exon 2
gtaacaaatatttgagtcatcctctttgatacaatatatagttgggtgttcgtgttctgtaatgaacaacagtttactcaatacttcgagagaaagttttcttgtgaaatacatgcaggtctctaaagagacaatgtctgttttctgtgtctgcctgcagcttacccc---attata---atattttgcagGTGAGACTTTGTAGAGAAAAAGCTACATCCAATGTGTATGCAATGAAAAAGCTTAAGAAGTCCGAAATGTTACGAAGAGGGCAG
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------------------------------------------------------------------------------------------ttttattatacatggagaaaagaaatctatttttagaggcaatatatatgttctctgtttct-cctgcagcttgcctccagtttacatttttattcttcagGTGAGGCTCTGTAGAGAGAAAGCTACATCCAATGTATATGCAATGAAAAAGCTTAAGAAGTCTGAAATGTTACGAAGGGGCCAG
upper sequence: GRMZM2G049088_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv10s0003g05720.t01 (Vitis vinifera), 3'ss of exon 3
gtaacaaatatttgagtcatcctctttgatacaatatatagttgggtgttcgtgttctgtaatgaacaacagtt-tactcaatacttcgagagaaagttttcttgtgaaatacatgcaggtctctaaagagacaatgtctgttttctgtgtctgcctgcagcttaccccattataatattttgcagGTGAGACTTTGTAGAGAAAAAGCTACATCCAATGTGTATGCAATGAAAAAGCTTAAGAAGTCCGAAATGTTACGAAGAGGGCAG
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----------------------------------------------------------------------atttgtagttattagta-gaaatacaaatggcgtattcaatagctgttaaactctta-gttatagggactttaatgtgaatgtatttgc------------tgtaac--catgcagGTGAGACTTTGCAGAGAAAAAACTACTGGCCATGTGTATGCCATGAAAAAGCTCAAGAAATCAGAGATGCTTCGGAGGGGCCAG
upper sequence: GRMZM2G049088_T02 (Zea mays), 3'ss of exon 2
lower sequence: PP1S86_100V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaacaaatatttgagtcatcctctttgatacaatatatagttgggtgttcgtgttctgtaatgaacaacagtttactcaatacttcgagagaaagttttcttgtgaaatacatgcaggtctctaaagagacaatgtctgttttctgtgtctgcctgcagcttaccccattataatattttgcagGTGAGACTTTGTAGAGAAAAAGCTACATCCAATGTGTATGCAATGAAAAAGCTTAAGAAGTCCGAAATGTTACGAAGAGGGCAG
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----------------------------------------------------------------------------gttgaaatctcgagc-----ttttttgtcggaacctttgaagctatattggttcataggtaatgtctttctcaagtaaat-taacttatgtc-ttatg-tatgct-cagGTGAGATTATGCAGGGAGAAATCAAGTACGACTGTGTATGCTATGAAAAAGCTGAAGAAGTCTGAGATGCTACGAAGAGGCCAGMapped 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|76293758|gb|DV033326.1|DV033326EST: TTGATGACTTTGAATTGCTTACCATTATTGGGAGAGGTGCATTTGGGGAG GTGAGACTTTGTAGAGAAAAAGCTACATCCAATGTGTATGCAATGAAAAAG
genomic: TTGATGACTTTGAATTGCTTACCATTATTGGGAGAGGTGCATTTGGGGAGgtaacaaata ... tattttgcagGTGAGACTTTGTAGAGAAAAAGCTACATCCAATGTGTATGCAATGAAAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaatgtctgttttctgtgtctgcctgcagcttaccccattataatattttgcagGTGAGACTTTGTAGAGAAAAAGCTACATCCAATGTGTATGCAATGAAAAAGCTTAAGAAGTCCGAAATGTTACGAAGAGGGCAG
agcttac putative branch site (score: 3)
attataatattttgca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacaaatatttgagtcatcctctttgatacaatatatagttgggtgttcgtgttctgtaatgaacaacagtttactcaatacttcgagagaaagttttcttgtgaaatacatgcaggtctctaaagagacaatgtctgttttctgtgtctgcctgcagcttaccccattataatattttgcagGTGAGACTTTGTAGAGAAAAAGCTACATCCAATGTGTATGCAATGAAAAAGCTTAAGAAGTCCGAAATGTTACGAAGAGGGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG