Sequence
atgc intronic sequence ATGC exonic sequencegtaagcaattcatggctatgatcaacaaagcttcacttttacacatctcttgcatattttttacaggaaaatagtcagattaaattcttgctttttctgcagGATAAAGCCTTGGCTGCTCTAGCCATTGAGGACAAGAAAAGGCAGTATGCTGCTGCAGAGAAGCACCTTGAAGATGTGTTGCATTCAGCTCTTGCCACTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0049g01470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os08g14220.1 (Oryza sativa), 3'ss of exon 4
gtaagcaattcatggctatgatcaacaaagcttcacttttacacatctcttgcatattttttacaggaaaatagtcagattaaattcttgctttttctgcagGATAAAGCCTTGGCTGCTCTAGCCATTGAGGACAAGAAAAGGCAGTATGCTGCTGCAGAGAAGCACCTTGAAGATGTGTTGCATTCAGCTCTTGCCACTT
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---------gtatgccttttgctttct--gttttgttccttttcttcagacataaatcttt-------acttattcttggtattttttgtgactgtcatcagGACAAAGCTCTAGCAGCTCTAGCTATAGAGGACAAAAAAAGACAGTATGCGGCGGCAGAGAAGTATCTGGAAGATGTGTTACAGTCTGCATTAACCACAC
upper sequence: Vv05s0049g01470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G104704_T01 (Zea mays), 3'ss of exon 4
gtaagcaattcatggctatgatcaacaaagcttcacttttacacatctcttgcatattttttacaggaaaatagtcagattaaattcttgctttttctgcagGATAAAGCCTTGGCTGCTCTAGCCATTGAGGACAAGAAAAGGCAGTATGCTGCTGCAGAGAAGCACCTTGAAGATGTGTTGCATTCAGCTCTTGCCACTT
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---------------gtatgtttttta--gcttttgtttc-cttgtttttatgatgaaatccattactaattatc--ggttactttgtcaatttgtaatcagGATAAAGCTTTAGCTGCACTAGCTATAGAGGACAAAAAGAGGCAGTATGCAGCCGCAGAGAAGTACCTAGAAGATGTGTTGCAATCTGCTCTAACCACAA
upper sequence: Vv05s0049g01470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G32470.2 (Glycine max), 3'ss of exon 6
gtaagcaattcatggctatgatcaacaaagcttcacttttacacatctcttgcatattttttacaggaaaata-gtcaga--ttaaattcttgct--tt----ttctgcagGATAAAGCCTTGGCTGCTCTAGCCATTGAGGACAAGAAAAGGCAGTATGCTGCTGCAGAGAAGCACCTTGAAGATGTGTTGCATTCAGCTCTTGCCACTT
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----gtatttcatgtttg-------catgctttctgtttgttataattcttgactgtttttaaaactatgttgtgttaattcttacatttctgttgattgggattgtccagGATAAAGCTTTGGCTGCCTTAGCAATTGAGGATAAGAAAAGGCAGTATGCCGATGCTGAGAAGTATCTTGAAGATGTATTGCAGTCAGCTCTTGCTAGTT
upper sequence: Vv05s0049g01470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G09310.1 (Glycine max), 3'ss of exon 5
gtaagcaattcatggctatgatcaacaaagcttcacttttacacatctcttgcatatttttta-caggaaaatagtcaga-ttaaattcttgct--tt----ttctgcagGATAAAGCCTTGGCTGCTCTAGCCATTGAGGACAAGAAAAGGCAGTATGCTGCTGCAGAGAAGCACCTTGAAGATGTGTTGCATTCAGCTCTTGCCACTT
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----gtatttcatttttt------acatgctttctgtttgttataattcttgactcttttaaaactacgttgtgtttattcttacatttctgttgattgggattgtccagGATAAAGCTTTGGCTGCCTTAGCAATTGAGGATAAGAAGAGGCAGTATGCCGATGCTGAGAAGTATCTTGAAGATGTATTGCAGTCAGCTCTTGCTAGTTMapped 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|351044047|gb|FQ452720.1|FQ452720EST: AAACGAAGCCCATCCTTGATACTTTGAGAAGCTACCAGGACTTGCCTCCT GATAAAGCCTTGGCTGCTCTAGCCATTGAAGACAAGAAAAAGCAG
genomic: AAACGAAGCCCATCCTTGATACTTTGAGAAGCTACCAGGACTTGCCTCCTgtaagcaatt ... ttttctgcagGATAAAGCCTTGGCTGCTCTAGCCATTGAGGACAAGAAAAGGCAG
EST:
gi|110687005|gb|EE064039.1|EE064039EST: AAACGAAGCCCATCCTTGATACTTTGAGAAGCTACCAGGACTTGCCTCCT GATAAAGCCTTGGCTGCTCTAGCCATTGAGGACAAGAAAAGGCAGTATGCT
genomic: AAACGAAGCCCATCCTTGATACTTTGAGAAGCTACCAGGACTTGCCTCCTgtaagcaatt ... ttttctgcagGATAAAGCCTTGGCTGCTCTAGCCATTGAGGACAAGAAAAGGCAGTATGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgcatattttttacaggaaaatagtcagattaaattcttgctttttctgcagGATAAAGCCTTGGCTGCTCTAGCCATTGAGGACAAGAAAAGGCAGTATGCTGCTGCAGAGAAGCACCTTGAAGATGTGTTGCATTCAGCTCTTGCCACTT
ttcttgctttttctgc CT-rich tract
atattttttaca 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 |
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gtaagcaattcatggctatgatcaacaaagcttcacttttacacatctcttgcatattttttacaggaaaatagtcagattaaattcttgctttttctgcagGATAAAGCCTTGGCTGCTCTAGCCATTGAGGACAAGAAAAGGCAGTATGCTGCTGCAGAGAAGCACCTTGAAGATGTGTTGCATTCAGCTCTTGCCACTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC