Sequence
atgc intronic sequence ATGC exonic sequenceAAGAGCAAGGCTCTTCTTAGTCCTTCCTGATGCATTCCTGGATGCATTTTTGATATTGTGGATTTTCACTTCCCTTTCAAAGACATTAGAGCAACTACAGgtatcagttcttcgtctactatcagttttgagttccagttgttaatatcagttaaaatagtggcaacaacatcagagcttttctttcctttttatcctttccttttcttttttactatttttatttttcattcattatcatattctgatgctataattatttgtgttcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g01090.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G064366_T01 (Zea mays), 5'ss of exon 2
AAGAGCAAGGCTCTTCTTAGTCCTTCCTGATGCATTCCTGGATGCATTTTTGATATTGTGGATTTTCACTTCCCTTTCAAAGACATTAGAGCAACTACAGgta--tcagttcttcgtctactatcagttttgagttccagttgttaatatcagttaaaatagtggcaacaacatcagagcttttctttcctttttatcctttccttttcttttttactatttttatttttcattcattatcatattctgatgctataattatttgtgttcag
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CAAAGCAAGGCTTTTCCTGGTCCTTCCTGATGCATTTTTGGATGCTTTTCTCATACTCTGGATTTTCACTTCTCTTTCCCGCACACTAGAGAAGCTACAGgtaagctaatttagtgcagtttaacaagtagaagcatttctaattgttctctctttatgtaaattca-tacaatctaaactttgtagacttccacatgtaa-----------------------------------------------------------------------
upper sequence: Vv12s0034g01090.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA08G19670.1 (Glycine max), 5'ss of exon 2
AAGAGCAAGGCTCTTCTTAGTCCTTCCTGATGCATTCCTGGATGCATTTTTGATATTGTGGATTTTCACTTCCCTTTCAAAGACATTAGAGCAACTACAGgtatcagttcttcgtctactatcagttttgagttccagttgttaatatcagttaaaatagtggcaacaacatcagagcttttctttcctttttatcctttccttttcttttttactatttttatttttcattcattatcatattctgatgctataattatttgtgttcag
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AAGGGCAAGGCTCCTTCTAGTTCTTCCTGATGCTTTCTTAGATGCATTTTTGATATTATGGATTTTTACATCTCTTTCAAGAACACTGGAGCAGTTACAGgtatcttttcctcaaattcttattattttg------------cagcatctataaattccctattttgaatctctta--ctatcttgctttcttaatatgtttgattttgtgtgtgtgtgtgtgtatgtggttcttag---------------------------------
upper sequence: Vv12s0034g01090.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA15G05370.1 (Glycine max), 5'ss of exon 2
AAGAGCAAGGCTCTTCTTAGTCCTTCCTGATGCATTCCTGGATGCATTTTTGATATTGTGGATTTTCACTTCCCTTTCAAAGACATTAGAGCAACTACAGgtatcagttcttcgtctactatcagttttgagttccagttgttaatatcagttaaaatagtggcaacaacatcagagcttttctttcctttttatcctttccttttcttttttactatttttatttttcattcattatcatattctgatgctataattatttgtgttcag
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AAGGGCAAGGCTTCTTCTAGTTCTTCCTGATGCTTTCTTAGATGCATTTTTGATATTATGGATTTTTACATCTCTTTCAAGAACACTGGAGCAGTTACAGgtatcttttcctcaaattcctattactttgcagcatacctataaattct--ctgttttgaatctcttactatcttgttttttcaatattttttattttgtgtgtgtggttctcag-------------------------------------------------------
upper sequence: Vv12s0034g01090.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA11G16270.1 (Glycine max), 5'ss of exon 2
----------AAGAGCAAGGCTCTTCTTAGTCCTTCCTGATGCATTCCTGGATGCATTTTTGATATTGTGGATTTTCACTTCCCTTTCAAAGACATTAGAGCAACTACAGgtatcagttcttcgt-ctactatcagttttgagttccagttgttaatatcagttaaaatagtggcaacaacatcagagcttttctttcctttttatcctttccttttcttttttactatttttatttttcattcattatcatattctgatgctataattatttgtgttcag
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ATGTGTCAGGAAGGGCAAGACTCCT---AGTTCTTCCTGATGCTTTCTTAAATGCATTTTTGATATTATGGATTTTTACATCTCTTTCAAGAACACTGGAGCAgttacaagtatcttttcctcaaattcctattattttccag---cagctat--attttccctattttgaatctcttactatcttgttttctcaatatgtttgattt-------------------------------------------------------------------------Mapped 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|30297840|gb|CB974634.1|CB974634EST: ATA-T-TCGATCTTTTCACTTCCCTTTCAAAGACATTAGAGCAACTACAG GCAAAGAGGAGTTCTGTTAAGCTGGATACCTACAGGAAGTTCTCAAATTCT
genomic: ATATTGTGGA--TTTTCACTTCCCTTTCAAAGACATTAGAGCAACTACAGgtatcagttc ... ttgtgttcagGCAAAGAGGAGTTCTGTTAAGCTGGATACCTACAGGAAGTTCTCAAATTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGAGCAAGGCTCTTCTTAGTCCTTCCTGATGCATTCCTGGATGCATTTTTGATATTGTGGATTTTCACTTCCCTTTCAAAGACATTAGAGCAACTACAGgtatcagttcttcgtctactatcagttttgagttccagttgttaatatcagttaaaatagtggcaacaacatcagagcttttctttcctttttatcctttccttttcttttttactatttttatttttcattcattatcatattctgatgctataattatttgtgttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA