Sequence
atgc intronic sequence ATGC exonic sequence...ttaattgctgagaggcaatgttacattacctgctatggagaaggaaacttatgttgcatttttcatagttacataaacacctaactgtactttgttgcagCTTGTAGGTACTGATCACTGCACATTCAACTCCACACAGAAAGCTTTTGGTTCTGATGATTTTCGGAAGATTCCCAATGGTGTAAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G020002_T03 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g59340.2 (Oryza sativa), 3'ss of exon 11
--------------------------------------------------------------------ttaattgctgagaggcaatgttacattacctgct-atggagaaggaaactt-------atgttgcatttttcatagttacataaacacctaactgtactttgt-----tgcagCTTGTAGGTACTGATCACTGCACATTCAACTCCACACAGAAAGCTTTTGGTTCTGATGATTTTCGGAAGATTCCCAATGGTGTAAATG
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gtgatacttttcataccctcagtttgacatcacggagttactttttcatcttagctaatatttggaggtcagttagcaaattataggggcgcactgtttgcttgcagaaacttataccttgctaaggggtagaaaacttcaca--tggatgactatctaactgctcttcatttctatgcagCTTGTAGGAACTGATCATTGCACCTTCAACTCCACACAGAAAGCTTTCGGCTCTGATGATTTCAGAAAGATTCCTAATGGTGTTAATG
upper sequence: GRMZM2G020002_T03 (Zea mays), 3'ss of exon 8
lower sequence: AT5G12200.1 (Arabidopsis thaliana), 3'ss of exon 8
------ttaattgctgagaggcaa-tgttacattacctgctatggagaaggaaacttatgttgcatttttcatagttacataaacacctaactgtactttgt-tgcagCTTGTAGGTACTGATCACTGCACATTCAACTCCACACAGAAAGCTTTTGGTTCTGATGATTTTCGGAAGATTCCCAATGGTGTAAATG
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gtttctttcctcgctgtgcataaactagagaattgcatgacctgtagcatcaaaatgttaagatcttctaaacacctttttctccttttattgggataatctctgcagCTTGTAGGAACTGATCACTGCACTTTCAATTCTACACAAAAAGCTCTAGGACTTGATGATTTCCGCAGAATACCTAATGGTGTTAATG
upper sequence: GRMZM2G020002_T03 (Zea mays), 3'ss of exon 8
lower sequence: Vv06s0009g02790.t01 (Vitis vinifera), 3'ss of exon 8
--ttaattgctgagaggcaatgttacattacctgctatggagaaggaaacttatgttgcatttttcatagttacataaacacctaactgtactttgttgcagCTTGTAGGTACTGATCACTGCACATTCAACTCCACACAGAAAGCTTTTGGTTCTGATGATTTTCGGAAGATTCCCAATGGTGTAAATG
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tctacattgaggataatgttgatcctaaagcataatcttgatattgttacttaaagtg-atctttga-attttctttcccatgatgcgtttccattttgcagCTTGTAGGGACTGATCATTGTGCCTTCAATTCCACACAGAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGMapped 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|18659090|gb|BM500149.1|BM500149EST: CAGGGCATGGTAAAGCACTCCAAGCTGCTCTTTCATCGGGAATTCTACAG CTTGTAGGTACTGATCACTGCACATTCAACTCCACACAGAAAGCTTTTGGT
genomic: CAGGGCATGGTAAAGCACTCCAAGCTGCTCTTTCATCGGGAATTCTACAGgtgacacact ... tttgttgcagCTTGTAGGTACTGATCACTGCACATTCAACTCCACACAGAAAGCTTTTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacttatgttgcatttttcatagttacataaacacctaactgtactttgttgcagCTTGTAGGTACTGATCACTGCACATTCAACTCCACACAGAAAGCTTTTGGTTCTGATGATTTTCGGAAGATTCCCAATGGTGTAAATG
acctaac putative branch site (score: 2)
ctttgtt putative PPT
atttttcatagtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaattgctgagaggcaatgttacattacctgctatggagaaggaaacttatgttgcatttttcatagttacataaacacctaactgtactttgttgcagCTTGTAGGTACTGATCACTGCACATTCAACTCCACACAGAAAGCTTTTGGTTCTGATGATTTTCGGAAGATTCCCAATGGTGTAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- -attgctg
- - - - - - - - - - - - - - cctgcta
- - - - - - - - - - - - - - - - - - - -gaaggaaa
- - - - - - - - - - - - - - - - - - - - - - - - -tatgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acataaa