Sequence
atgc intronic sequence ATGC exonic sequence...acctacccaagatttaccttgtgctatgcttgttcttttattgtgtattggtagcgggggtagaaaaatatggtactgatcctcttttttcatttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAGTCTAGTGCTATCAAGGTGATTGATTTCGGTAGCACTACTTATGATCAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G063792_T05 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g27520.4 (Oryza sativa), 3'ss of exon 7
-----------------acctacccaagatttaccttgtgctatgcttgttcttttattgtgtattggtagcgggggtagaaaaat---atggta-----ctgatcctcttttttcatttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAGTCTAGTGCTATCAAGGTGATTGATTTCGGTAGCACTACTTATGATCAAC
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gtatactttgttcttctacctatttgaccttttagcctttttaacgtcttctttttacccggtttagctgattatgattcaacaattttatgttatctttctaatccttctacaatctctgctagGTTTCATCCCGTTCTCCAAAGGAAGGTTCCTATTTCAAGCAGCTGCCCAAGTCCAGTGCTATTAAGGTGATTGATTTTGGCAGCACAACATATGACCAGC
upper sequence: GRMZM2G063792_T05 (Zea mays), 3'ss of exon 4
lower sequence: AT4G24740.1 (Arabidopsis thaliana), 3'ss of exon 7
acctacccaagatttaccttgtgcta-tgcttgttcttttattgtgtattggtagcgggggtagaaaaatatggtactgatcctcttttttcatttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAGTCTAGTGCTATCAAGGTGATTGATTTCGGTAGCACTACTTATGATCAAC------
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---------gtatatctcgaatgcaactgtgtgtgaccttaatgtggccaactatttaagtgctgaaggaat----ttggttgtgtttcctgat--gcagGG----GTCCCGATTACAAAGGGATGTATGCTAT---AAAAGAGTGCCTAAATCAAGTGCAATAAAGGTGATTGATTTTGGTAGCACAACTTATGAGCGCCAGGACCMapped 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|32845985|gb|CD985666.1|CD985666EST: GAAATTGGCATGCTTGAGAAGCTTGGTAAATATGGTGAAAGCAGATCCAG GTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAG
genomic: GAAATTGGCATGCTTGAGAAGCTTGGTAAATATGGTGAAAGCAGATCCAGgtgagtttgc ... catttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattggtagcgggggtagaaaaatatggtactgatcctcttttttcatttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAGTCTAGTGCTATCAAGGTGATTGATTTCGGTAGCACTACTTATGATCAAC
tactgat putative branch site (score: 2)
tcctcttttttcattt CT-rich tract
tagaaaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acctacccaagatttaccttgtgctatgcttgttcttttattgtgtattggtagcgggggtagaaaaatatggtactgatcctcttttttcatttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAGTCTAGTGCTATCAAGGTGATTGATTTCGGTAGCACTACTTATGATCAAC
- - - - - - - - - -tgtgcta
- - - - - - - - - - - - - tgcttgt
- - - - - - - - - - - - - - - - - - - - - -tgtattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaata