Sequence
atgc intronic sequence ATGC exonic sequence...tattctgtatttgttgtacatattgtataactcagcttgtagttgcattttctttaaaatattgtaattgtttgttattgaaatatgttaaaatttgcagGTTTAAGTGCATCGATCTTGATGGTAATGGTATTTTAACTTACAATGAAATGCAATTTTTCTATGAGGAGCAATTGCACCGAATGGAGTGCATGGCACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G104254_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv14s0036g00750.t01 (Vitis vinifera), 3'ss of exon 6
tattctgtatttgttgtacatattgtataactcagcttgtagttgcat-tttcttta----aaatattgta-attgtttgttattgaaatatgttaaaatttgcagGTTTAAGTGCATCGATCTTGATGGTAATGGTATTTTAACTTACAATGAAATGCAATTTTTCTATGAGGAGCAATTGCACCGAATGGAGTGCATGGCACAG
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---tctttggatggctttattatgaaatatttttgcatctcattatagatttcattatacaaacaactgtatactacttgtgacattaacttgttttcatt---agGTTCAAGTGCATAGATTTGGATGGAAATGGAGTTCTGACAAGGAATGAAATGCAATTCTTTTATGAGGAGCAGTTGCATCGAATGGAATGCATGGCCCAA
upper sequence: GRMZM2G104254_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S147_62V6.2 (Physcomitrella patens), 3'ss of exon 9
----------------------------------------------------------------------------------------tattctgtatttgttgtacat-attgtata---actcagcttg--tagttgcattttctttaaaatattgtaattgtttgttattgaaatatgttaaaatttgcagGTTTAAGTGCATCGATCTTGATGGTAATGGTATTTTAACTTACAATGAAATGCAATTTTTCTATGAGGAGCAATTGCACCGAATGGAGTGCATGGCACAG
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gtacgtacctttatatggcctctaaaatgctctccacttttttggcatgaagttgatgtttttgaatgcaaatcatgtgctttctgacaaaacagtatttaggataaaggattgaattttcactcggattgattagttacataacaacgaggacatcgagtctaatttattttttcttgtac-acctgatgcagGTTCAAATGTGTGGACCTGGATTGTGATGGTGTGATAACACCAAATGAGATGCAATATTTTTATGAGGAGCAACTTCATCGGATGGAGTGCATGGCTCAG
upper sequence: GRMZM2G104254_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S191_94V6.1 (Physcomitrella patens), 3'ss of exon 10
--------------------------------------------------------------tattctgtatttgttgtacatattgtataactcagcttgtagttgcattttctttaaaatat-tgtaattgtttgttattgaa-atatgttaaaatttg---cagGTTTAAGTGCATCGATCTTGATGGTAATGGTATTTTAACTTACAATGAAATGCAATTTTTCTATGAGGAGCAATTGCACCGAATGGAGTGCATGGCACAG
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gtaatttttttgtttttttcttattctttttaattttatttattaatttatttattttattatctcccatgtagttatttctttttacaagcttgaattcttaaacatgatcattgtgatatatctatatttaatgattatctaacaagtggtgaaaataaaattagGTTCAAGTGTGTGGATTTAGATTGTGATGGGGTGATCACTGCAAATGAAATGCATTATTTTTATGAGGAGCAATTACATCGAATGGAATGTATGGCACAAMapped 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|60352587|gb|DN219560.1|DN219560EST: TTTATATTATCAGAGGAAGACAAATCATCTGAGCCTAGTCTTGAATACTG GTTTAAGTGCATCGATCTTGATGGTAATGGTATTTTAACTTACAATGAAAT
genomic: TTTATATTATCAGAGGAAGACAAATCATCTGAGCCTAGTCTTGAATACTGgtaggtggta ... aaatttgcagGTTTAAGTGCATCGATCTTGATGGTAATGGTATTTTAACTTACAATGAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttctttaaaatattgtaattgtttgttattgaaatatgttaaaatttgcagGTTTAAGTGCATCGATCTTGATGGTAATGGTATTTTAACTTACAATGAAATGCAATTTTTCTATGAGGAGCAATTGCACCGAATGGAGTGCATGGCACAG
tttaaaatattgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattctgtatttgttgtacatattgtataactcagcttgtagttgcattttctttaaaatattgtaattgtttgttattgaaatatgttaaaatttgcagGTTTAAGTGCATCGATCTTGATGGTAATGGTATTTTAACTTACAATGAAATGCAATTTTTCTATGAGGAGCAATTGCACCGAATGGAGTGCATGGCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - -tttgttg
- - - - - - - - - - - - - - - - cagcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgt