Sequence
atgc intronic sequence ATGC exonic sequencegtgagtatcaattctgactcctttcaagcatcaaattaagttttgttgaaagcatactgctgaagtactacttaaataataccatgttctcttggtggagtaatttccttcaatgttgatgattgctcatcttgttggcaatctgctcttgtgtacatttcagGCAGCAGATTACTTGGAGCAGGCTGAGTATGATACTGGTAACCCTGATGATGACTTGAAAACACAGTCTCTAATGAGACAGCTGCTCTATAATCCCAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g03950.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g52340.1 (Oryza sativa), 3'ss of exon 6
gtgagtatcaattctgactcctttcaagcatcaaattaagttttgttgaaagcatactgctgaagtactacttaaataataccatgttctcttggtggagtaatttccttcaatgttgatgattgctcatcttgttggcaatctgctcttgtgtacatttcagGCAGCAGATTACTTGGAGCAGGCTGAGTATGATACTGGTAACCCTGATGATGACTTGAAAACACAGTCTCTAATGAGACAGCTGCTCTATAATCCCAAAT
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----------gttcctccttctcccttgctttaaaatcgaactctttg------ttttgc----atggtactcatgtactacaaggttaagctgcc-----aattttctgttctaaagcttgctgcatataatagttttatttggcttttg---------cagGCAGCAGATTACCTTGAGCAGGCTGAGTACAACACCGGCAATCCTGAAGAGGACTTGAAAACACAGTCTTTAGTGAAGCAATTGCTTTACAACCCCAAAT
upper sequence: Vv10s0003g03950.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G521844_T01 (Zea mays), 3'ss of exon 6
gtgagtatcaattctgactcctttcaagcatcaaattaagttttgttgaaagcatactgctgaagtactacttaaataataccatgttctcttggtggagtaatttccttcaatgttgatgattgctcatcttgttggcaatctgctcttgtgtacatttcagGCAGCAGATTACTTGGAGCAGGCTGAGTATGATACTGGTAACCCTGATGATGACTTGAAAACACAGTCTCTAATGAGACAGCTGCTCTATAATCCCAAAT
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-----------------------------gttccctta---tttaatagtattattttgtttcaacgcta-ttgtggaagatcaaactgt-----taggtttattttgtttaaaatttgtagtggataat---------gatttgatttggaata--tttcagGCAGCAGATTATCTTGAGCAGGCTGAGTACAATACTGGCAATCCTGAAGATGACTTGAAAACAGAATCTCTTGTGAAGCAATTGCTTTACAATTCCCAGT
upper sequence: Vv10s0003g03950.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G108115_T01 (Zea mays), 3'ss of exon 6
gtgagtatcaattctgactcctttcaagcatcaaattaagttttgttgaaagcatactgctgaagtactacttaaataataccatgttctcttggtggagtaatttccttcaatgttgatgattgctcatcttgttggcaatctgctcttgtgtacatttcagGCAGCAGATTACTTGGAGCAGGCTGAGTATGATACTGGTAACCCTGATGATGACTTGAAAACACAGTCTCTAATGAGACAGCTGCTCTATAATCCCAAAT
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---gttctcaattcttccttatttaatact----attcatttcgtttggacgc-tactgtggaaga-----tcaaac--tgttaggtt------------tatttttgttcaaaatttgtagtggataat---------gatttgatttggaatc--tttcagGCAGCAAATTATCTTGAGCAGGCTGAGTACAATACCGGCAATCCTGAAGACGACTTGAAAACAGAATCTCTTGTGAAGCAGTTGCTTTACAATTCCAAGTMapped 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|110728702|gb|EE104502.1|EE104502EST: TTGGAAACTTGTACTTCACTTTTCTCTTTGTTCTTCGAGCTGCCACAAAA GCAGCAGATTACTTGGAGCAGGCTGAGTATGATACTGGTAACCCTGATGAT
genomic: TCGGAAACTTGTACTTCACTTTTCTCTTTGTTCTTCGAGCTGCCACAAAAgtgagtatca ... tacatttcagGCAGCAGATTACTTGGAGCAGGCTGAGTATGATACTGGTAACCCTGATGAT
EST:
gi|37189181|gb|CF608530.1|CF608530EST: TCGGAAACTTGTACTTCACTTTTCTCTTTGTTCTTCGAGCTGCCACAAAA GCAGCAGATTACTTGGAGCAGGCTGAGTATGATACTGGTAACCCTGATGAT
genomic: TCGGAAACTTGTACTTCACTTTTCTCTTTGTTCTTCGAGCTGCCACAAAAgtgagtatca ... tacatttcagGCAGCAGATTACTTGGAGCAGGCTGAGTATGATACTGGTAACCCTGATGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaatgttgatgattgctcatcttgttggcaatctgctcttgtgtacatttcagGCAGCAGATTACTTGGAGCAGGCTGAGTATGATACTGGTAACCCTGATGATGACTTGAAAACACAGTCTCTAATGAGACAGCTGCTCTATAATCCCAAAT
tgttgat putative branch site (score: 4)
tacattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtatcaattctgactcctttcaagcatcaaattaagttttgttgaaagcatactgctgaagtactacttaaataataccatgttctcttggtggagtaatttccttcaatgttgatgattgctcatcttgttggcaatctgctcttgtgtacatttcagGCAGCAGATTACTTGGAGCAGGCTGAGTATGATACTGGTAACCCTGATGATGACTTGAAAACACAGTCTCTAATGAGACAGCTGCTCTATAATCCCAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT