Sequence
atgc intronic sequence ATGC exonic sequence...tctgcagaaaaatttgcatttccatttttccattaccctttttattttggttcttgtttctcctatattggcatggggattcattgcattaattttgcagGAAGATCTGTACTACCCACATCCATTGGTGCAGGATATACTTTGGACATCCCTCGACAAAGTTGTTGAACCTATTCTAATGCATTGGCCTGGGAAAAAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g04710.1 (Oryza sativa), 3'ss of exon 6
tctgcagaaaaatttgcatttccatttttccattaccctttttattttggt----tcttgtttctcctatattggcatggggattcattgcattaattttgcagGAAGATCTGTACTACCCACATCCATTGGTGCAGGATATACTTTGGACATCCCTCGACAAAGTTGTTGAACCTATTCTAATGCATTGGCCTGGGAAAAAGT
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----tacataatttatcctatgtatcttgcttttatcactttgtgtttaataagatctggatttttctttctgaaagtttttttttttgggtattgtattgcagGAAGATCTGTACTATCCACATCCATTCGTGCAGGATGTATTATGGGCCACTCTCCACAAATTTGTTGAACCAGCTATGTTGCGTTGGCCTGGGAACAAAT
upper sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G065494_T01 (Zea mays), 3'ss of exon 6
tctgcagaaaaatttgcatttccatttttccattaccctttttattttggttcttgtttctcctatattggcatggggat-----tcattgcattaattttgcagGAAGATCTGTACTACCCACATCCATTGGTGCAGGATATACTTTGGACATCCCTCGACAAAGTTGTTGAACCTATTCTAATGCATTGGCCTGGGAAAAAGT
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---aaaggaaatttcatgtttcc-tttgtctgttaggagtcc-attttggatcctgattgttctgtctggaactctgaatgagttttgatacatttgtgctgcagGAAGATCTGTACTATCCACATCCATTTGTTCAAGATGTCTTATGGGCCACTCTCCATAAATTTGTTGAACCAGTTATGATGAGTTGGCCTGGCAGTAAAT
upper sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G023798_T02 (Zea mays), 3'ss of exon 4
tctgcagaaaaatttgcatttccatttttccattaccctttttattttggttcttgtttctcctatattggc--atggggattcattgcattaattttgcagGAAGATCTGTACTACCCACATCCATTGGTGCAGGATATACTTTGGACATCCCTCGACAAAGTTGTTGAACCTATTCTAATGCATTGGCCTGGGAAAAAGT
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--cttaaaggaactttcatgtttatctttctgcggctgtgaggagttcaatttggatcctgactattctgtctgaaggaatttcgatacatttctgctgcagGAAGATCTGTACTACCCACACCCATTCGTTCAAGATGTGTTGTGGGCCACTCTCCATAAATTCGTTGAACCAGTTATGATGCATTGGCCTGGCAGCAAAT
upper sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G00430.2 (Glycine max), 3'ss of exon 7
tctgcagaaaaatttgcatttccatttttccattaccctttttattttggttcttgtttctcctatattggcatggggattcattgcattaattttgcagGAAGATCTGTACTACCCACATCCATTGGTGCAGGATATACTTTGGACATCCCTCGACAAAGTTGTTGAACCTATTCTAATGCATTGGCCTGGGAAAAAGT---------------------------------
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--------------------------atccaactacctatttaattgtgctggagata------agaattacaagtagactatctttgctc-ttgtgcaggaagatttgtactatcctcacccacttgtacagGATATTCTTTGGGCATCTCTACACAAGTTCCTTGAGCCTATTCTGATGCATTGGCCTGGAAAAAGATTGAGGGAAAAGGCTATTATTTCTGCATTGGAGC
upper sequence: Vv11s0065g00640.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G00430.1 (Glycine max), 3'ss of exon 7
tctgcaga-aaaatttgcatttccatttttccattaccc--tttttattttggttcttgtttctcctatattggcatggggattcattgcattaattttgcagGAAGATCTGTACTACCCACATCCATTGGTGCAGGATATACTTTGGACATCCCTCGACAAAGTTGTTGAACCTATTCTAATGCATTGGCCTGGGAAAAAGT
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--tacaaataaaatttggcatttgattcctctaacatccaactacctatttaattgtgctggagataagaattacaagtagactatctttgctc-ttgtgcagGAAGATTTGTACTATCCTCACCCACTTGTACAGGATATTCTTTGGGCATCTCTACACAAGTTCCTTGAGCCTATTCTGATGCATTGGCCTGGAAAAAGATMapped 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|161719373|gb|FC064852.1|FC064852EST: TTCCATATCATGAAATCGATTGGAATCA-GCACGAACCCTATGTGCCA-G GA-GATCTGTACTACC-ACATCC
genomic: TTCCATATCATGAAATCGATTGGAATCAAGCACGAAACCTATGTGCCAAGgttgaactta ... aattttgcagGAAGATCTGTACTACCCACATCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggttcttgtttctcctatattggcatggggattcattgcattaattttgcagGAAGATCTGTACTACCCACATCCATTGGTGCAGGATATACTTTGGACATCCCTCGACAAAGTTGTTGAACCTATTCTAATGCATTGGCCTGGGAAAAAGT
cattaat putative branch site (score: 3)
attgcattaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgcagaaaaatttgcatttccatttttccattaccctttttattttggttcttgtttctcctatattggcatggggattcattgcattaattttgcagGAAGATCTGTACTACCCACATCCATTGGTGCAGGATATACTTTGGACATCCCTCGACAAAGTTGTTGAACCTATTCTAATGCATTGGCCTGGGAAAAAGT
- - -agaaaaa
- - - - - - - -gcatttc
- - - - - - - - - - - - - - -ccattac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cattgca