Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgtttctatcctttttttttctgttctcaattttattttccatctttttgttgcctttatgtttctttgtaagttcaagcatgtcccttttaactttagtggatgaacatcaaagtttaagttgctttaactctttattgaagtgattttgcttccagGTGGGAAATTTGGGTGCTCCAGTTGAAGAATGGACAGTGGGAGGAACGGCATTGACTTCTTTGATGGATGTGGAGAGGAGACATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0059g01220.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os06g13810.1 (Oryza sativa), 3'ss of exon 12
gtttgtgt-ttctatcctttttttttctgttctcaattttattttccatctttttgttgcctttatgtttctttgtaagttcaagcatgtcccttttaactttagtggatgaacatcaaagtttaa-gttgctttaactct-ttattgaagtgattttgcttccagGTGGGAAATTTGGGTGCTCCAGTTGAAGAATGGACAGTGGGAGGAACGGCATTGACTTCTTTGATGGATGTGGAGAGGAGACATG
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gtatgcacactatagttccctgtcacttgttggatacccagattggaacctaagaacgggctttgtggaagt--gatgtttgcagcatgtttgtttacgaaccagcgcaggcagatgaacttctaatgatatgatcatgctcttatgtttgtatttttact--cagGTTGGCAACCTCGCTGCTCCTGTGGAAGAATGGACCGTTGGTGGAACTGCATTGACATCGTTGATGGATGTTGAGAGGAGGCACG
upper sequence: Vv12s0059g01220.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G143862_T01 (Zea mays), 3'ss of exon 5
gtttgtgtttctatcctttttttttctgttctcaattttattttccatctttttgttgcctttatgtttctttgtaagttcaagcatgtcccttttaactttagtggatgaacatcaaagtttaagttgctttaactctttattgaagtgattttgcttccagGTGGGAAATTTGGGTGCTCCAGTTGAAGAATGGACAGTGGGAGGAACGGCATTGACTTCTTTGATGGATGTGGAGAGGAGACATG
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---------------------------------------------------------acctacagtattaggagcatctgggag-atgtcttatattgtgattgtggctgatcgtatgtacttgcatgatttggtcgctgtcttt---tttctttgctt--agGTTGGCAACCTTGCGGCTCCAGTAGAAGAATGGACTGTTGGTGGAACAGCATTGACATCACTGATGGATGTTGAGAGGAGGCACG
upper sequence: Vv12s0059g01220.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G059151_T01 (Zea mays), 3'ss of exon 12
gtttgtgtttctatcctttttttttctgttctcaattttattttccatctttttgttgcctttatgtttctttgtaagttcaagcatgtcccttttaactt--tagtggatgaacatcaaagtttaagttgctttaactctttattgaagtgattttgcttccagGTGGGAAATTTGGGTGCTCCAGTTGAAGAATGGACAGTGGGAGGAACGGCATTGACTTCTTTGATGGATGTGGAGAGGAGACATG
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---------------------------------------------------------------acagtg-ttaggaatacctgggagatatcttataatgtgtttgtgactgatcttatgtacttgcatgatttaatcgctgtcttttttttttcttggctcagGTTGGCAACCTTGCG-GCTCCAGTTGAAGAATGGACTGTTGGTGGAACAGCATTAACATCACTGATGGATGTTGAGAGGAGGCACG
upper sequence: Vv12s0059g01220.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: EFJ13842 (Selaginella moellendorffii), 3'ss of exon 12
gtttgtgtttctatcctttttttttctgttctcaattttattttccatctttttgttgcctttatgtttctttgtaagttcaagcatgtcccttttaactttagtggatgaacatcaaagtttaagttgctttaactctttattgaagtgattttgcttccagGTGGGAAATTTGGGTGCTCCAGTTGAAGAATGGACAGTGGGAGGAACGGCATTGACTTCTTTGATGGATGTGGAGAGGAGACATG
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------------------------------------------------------------------------------------------------gtctgtagtgaagtaccatccagctatagtgtg---tgact---------aatgctctagtttccagGTGGGAAATTTGTCAGCCTCTTCAAAAGACTGGACTGTGGGAGGGACGGCATTGACATCATTGATGGATGTTGAGAGACGGAGAG
upper sequence: Vv12s0059g01220.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: EFJ12684 (Selaginella moellendorffii), 3'ss of exon 12
gtttgtgtttctatcctttttttttctgttctcaattttattttccatctttttgttgcctttatgtttctttgtaagttcaagcatgtcccttttaactttagtggatgaacatcaaagtttaagttgctttaactctttattgaagtgattttgcttccagGTGGGAAATTTGGGTGCTCCAGTTGAAGAATGGACAGTGGGAGGAACGGCATTGACTTCTTTGATGGATGTGGAGAGGAGACATG
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------------------------------------------------------------------------------------------------gtctgtagtgaagtaccatcca----------gctatagtgtgttact--aatgctctagtttccagGTGGGGAATTTGTCAACCTCTTCAAAAGACTGGACCGTGGGAGGGACGGCATTGACATCATTGATGGATGTTGAGAGACGGAGAGMapped 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|110371529|gb|EC935625.1|EC935625EST: ATGGTGCTGGAGCTCTCCTTCATTCTGGAAAGACTGGATTGATTTCTTCA GTGGGAAATTTGGGTGCTCCAGTTGAAGAATGGACAGTGGGCGGAACGGCA
genomic: ATGGTGCTGGAGCTCTCCTTCATTCTGGAAAGACTGGATTGATTTCTTCAgtttgtgttt ... ttgcttccagGTGGGAAATTTGGGTGCTCCAGTTGAAGAATGGACAGTGGGAGGAACGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaacatcaaagtttaagttgctttaactctttattgaagtgattttgcttccagGTGGGAAATTTGGGTGCTCCAGTTGAAGAATGGACAGTGGGAGGAACGGCATTGACTTCTTTGATGGATGTGGAGAGGAGACATG
ctttaac putative branch site (score: 3)
ttttgcttcc putative PPT
tttaactctttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtgtttctatcctttttttttctgttctcaattttattttccatctttttgttgcctttatgtttctttgtaagttcaagcatgtcccttttaactttagtggatgaacatcaaagtttaagttgctttaactctttattgaagtgattttgcttccagGTGGGAAATTTGGGTGCTCCAGTTGAAGAATGGACAGTGGGAGGAACGGCATTGACTTCTTTGATGGATGTGGAGAGGAGACATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA