Sequence
atgc intronic sequence ATGC exonic sequence...taatacacttcaacataatttttgctattgcttttttttttttcatttaatgagcatatcaagattattcatttatctggaatgatttccatccatgcagTGATATTCGAGGTGTAGCTGTTGCTGGTGTTGAGGGAGAACCTGTTACTCTTACTGAACCAGTTACAGAAGCAATAGCAGCTGCCTTTGGTGCCTGGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G069676_T03 (Zea mays), 3'ss of exon 3
-taatacacttcaacataatttttgctattgcttttt---tttttttcattta-atgagcatatcaagattattcatttatctggaatgatttccatccatgcagTGATATTCGAGGTGTAGCTGTTGCTGGTGTTGAGGGAGAACCTGTTACTCTTACTGAACCAGTTACAGAAGCAATAGCAGCTGCCTTTGGTGCCTGGTTG
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aacacacaacccaccctgatttgggttagggtttccaacattatgtacacttgtaagattttatatatgaaatgctttgattgaggctgttctttg-----gcagTGATATTCGTGGTGTTGCTGTTGCTGGGGTTGAAGGTGAGCCTGTCAACCTCACGGAAGATGTCACTAAAGCTATAGCTGCAGCTTTTGCTGCATGGCTG
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G32030.1 (Glycine max), 3'ss of exon 2
taataca-cttcaacataatttttgctattgcttttttttttttcatttaatgagcatatcaagattattcatttatctggaatgatttccatccatgcagTGATATTCGAGGTGTAGCTGTTGCTGGTGTTGAGGGAGAACCTGTTACTCTTACTGAACCAGTTACAGAAGCAATAGCAGCTGCCTTTGGTGCCTGGTTG
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aattccatcttcttttttattaagacagctagcatttattcggtcttacatcttgcgcactgac-ttgtatataacttattaataaaattaatttaaatagTGACATTCGTGGTGTGGCTGTTGATGGTGTTGAGGGAGAGCCAGTTAACCTCACTGAACCTGTTGCCGAAGCAATAGGAGCTGCTTTTGCTGCATGGTTA
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G35490.1 (Glycine max), 3'ss of exon 3
taataca--cttcaacataatttttgctattgcttttttttttttcatttaatgagcatatcaagattattcatttatctggaatgatttccatccatgcagTGATATTCGAGGTGTAGCTGTTGCTGGTGTTGAGGGAGAACCTGTTACTCTTACTGAACCAGTTACAGAAGCAATAGCAGCTGCCTTTGGTGCCTGGTTG
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-aatcccatcttcctttttattaagatggctagcatttattcggtcctacatcctgtacactgac-ttgtatatagcttactaataaaattaatttaaacagTGACATTCGTGGTGTGGCTGTTGATGGTGTTGAGGGAGAGCTAGTTAACCTCACTGAACCTGTTGCTGAAGCAATAGGAGCTGCTTTTGCTGCATGGTTA
upper sequence: Vv13s0019g04370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G17530.3 (Arabidopsis thaliana), 3'ss of exon 3
--------taatacactt-caacataatttttgctattgcttttttttttttcatttaatgag---------------catatcaagattattcatttatctggaatgatttccatccatg------cagTGATATTCGAGGTGTAGCTGTTGCTGGTGTTGAGGGAGAACCTGTTACTCTTACTGAACCAGTTACAGAAGCAATAGCAGCTGCCTTTGGTGCCTGGTTG
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gtgaaccatacatcacttaccagctaatcata--tatttctctgttcaacaacatttagaaagtactacaaatatccacattttagaattccatgttgactcacgctacgtttcattgttgaatccccagTGATATTCGGGGTGTAGCGGTCACTGGGGTTGAGGGGGAACCTGTAAGCCTTCCTGAACCAGTGACTGAAGCCATAGCTGCTGCTTTTGGGCAATGGCTGMapped 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|161712108|gb|FC061480.1|FC061480EST: TCATTACCATCTCTTGAAAAAGTTGATTTTCTGAAGCTTCAAAATGGCAG TGATATTCGAGGTGTAGCTGTTGCTGGTGTTGAGGGAGAACCTGTTACTCT
genomic: TCATTACCATCTCTTGAAAAAGTTGATTTTCTGAAGCTTCAAAATGGCAGgtaaagaatt ... atccatgcagTGATATTCGAGGTGTAGCTGTTGCTGGTGTTGAGGGAGAACCTGTTACTCT
EST:
gi|161721838|gb|FC071151.1|FC071151EST: TCATTACCATCTCTTGAAAAAGTTGATTTTCTGAAGCTTCAAAATGGCAG TGATATTCGAGGTGTAGCTGTTGCTGGTGTTGAGGGAGAACCTGTTACTCT
genomic: TCATTACCATCTCTTGAAAAAGTTGATTTTCTGAAGCTTCAAAATGGCAGgtaaagaatt ... atccatgcagTGATATTCGAGGTGTAGCTGTTGCTGGTGTTGAGGGAGAACCTGTTACTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaatgagcatatcaagattattcatttatctggaatgatttccatccatgcagTGATATTCGAGGTGTAGCTGTTGCTGGTGTTGAGGGAGAACCTGTTACTCTTACTGAACCAGTTACAGAAGCAATAGCAGCTGCCTTTGGTGCCTGGTTG
atttaat putative branch site (score: 4)
tttccatcc putative PPT
atatcaagattattca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatacacttcaacataatttttgctattgcttttttttttttcatttaatgagcatatcaagattattcatttatctggaatgatttccatccatgcagTGATATTCGAGGTGTAGCTGTTGCTGGTGTTGAGGGAGAACCTGTTACTCTTACTGAACCAGTTACAGAAGCAATAGCAGCTGCCTTTGGTGCCTGGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
-aatacac
- - - - - -aacataa
- - - - - - - - - - - - ctattgc
- - - - - - - - - - - - - - - - - - - - - - - - - -gagcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaatga