Sequence
atgc intronic sequence ATGC exonic sequencegtatgttcttttgacatttaatgaggtacttattttctaaaattagttaaagaggccaatctctgagacaaccttggtataattctcatcgagttattcctcttatgaaaatctaccatgagcttcatagtacggtcaagaaacctgcagtttttatttacaaaacatgccttctttctgggcagGGAGGAGCTGGAGAAAATGTTCTCTGGCATGCCTGCTGTGTTCACAGGGATGTTGCAAGGTGAGGAGCTCTCTCAGGCATACGCCAGCGGGGATGTTTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os01g04920.1 (Oryza sativa), 3'ss of exon 10
gtatgttcttttgacatttaatgaggtacttattttctaaaattagttaaagaggccaatctctgagacaaccttggtataattctcatcgagttattcctcttatgaaa-atctaccatgagcttcatagtacggtcaagaaacctgcagtttttatttacaaaacatgccttctttctgggcagGGAGGAGCTGGAGAAAATGTTCTCTGGCATGCCTGCTGTGTTCACAGGGATGTTGCAAGGTGAGGAGCTCTCTCAGGCATACGCCAGCGGGGATGTTTTT
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--------------------------------------------------------------------cggtttacagaaaatgttcattgg---acaccttcggtgaatcaattactttgggctttttgccac--tagtgtgccttaca--tgctctctgcaa-----------ttacatgacagGAGTGAGCTGGAGAAGATGTTTGAGGGGATGCCTGCCGTGTTCACTGGAATGATGCAAGGCGAAGAGCTATCACAGGCATATGCCAGCGGTGATGTTTTC
upper sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os03g15840.1 (Oryza sativa), 3'ss of exon 10
gtatgttcttttgacatttaatgaggtacttattttctaaaattagttaaagaggccaatctctgagacaaccttggtataattctcatcgagttattcctcttatgaaaatctaccatgagcttcatagtacggtcaagaaacctgcagtttttatttacaaaacatgccttctttctgggcagGGAGGAGCTGGAGAAAATGTTCTCTGGCATGCCTGCTGTGTTCACAGGGATGTTGCAAGGTGAGGAGCTCTCTCAGGCATACGCCAGCGGGGATGTTTTT
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----------------------------------------------------------------------------gtattatatgcac--aactgtaggtgcc-tagccatctgtt-tgatccctatagtttcatcttgaa-tttggagaa---acttatgcggcctgtttaatctttgg-cagGGCTGAGCTGGAAAGAATGTTTACTGGCATGCCTGCAGTATTCACTGGAATGCTCCAAGGCGAGGAGCTCTCACAAGCATATGCCAGTGGCGACTTGTTT
upper sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G477503_T01 (Zea mays), 3'ss of exon 9
gtatgttcttttgacatttaatgaggtacttattttctaaaattagttaaagaggccaatctctgagacaaccttggtataattctcatcgag-ttattcctcttatgaaaatctaccatgagcttcatagtacggtcaagaaacctgcagtttttatttacaaaacatgccttctttctgggcagGGAGGAGCTGGAGAAAATGTTCTCTGGCATGCCTGCTGTGTTCACAGGGATGTTGCAAGGTGAGGAGCTCTCTCAGGCATACGCCAGCGGGGATGTTTTT
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-----------------------------------------------------------------------------tagacaattcattgaacttgccgctgttctgtgcatcgacattg--ttgagcttttagagcaaggtcttttacatttttctcta---aactaaactacat----ggcagGGGTGAACTAGAGAAGATGTTTGAAGGAATGCCAGCAGTGTTCACAGGAATGATGCAGGGTGAAGAGCTCTCGCAGGCGTACGCCAGCGGCGATGTTTTC
upper sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G049190_T01 (Zea mays), 3'ss of exon 10
gtatgttcttttgacatttaatgaggtacttattttctaaaattagttaaagaggccaatctctgagacaaccttggtataattctcatcgagttattcctcttatgaaaatctaccatgagcttcatagtacggtcaagaaacctgcagtttttatttacaaaacatgccttctttctgggcagGGAGGAGCTGGAGAAAATGTTCTCTGGCATGCCTGCTGTGTTCACAGGGATGTTGCAAGGTGAGGAGCTCTCTCAGGCATACGCCAGCGGGGATGTTTTT
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--------------------------------------------------------------------------------caccatcgacaactaacttttactttggatgtttg--gtcatctgtttg--accattgcaatggtttgatcttcaaacta-gaaatatttacattggacatgcagGTCCGAGTTGGAAAAAATGTTCACGGGCATGCCTGCAGTTTTTACCGGAATGCTCCAAGGTGAGGAGCTCTCACAAGCGTACGCCAGTGGAGATGTATTTMapped 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|110423954|gb|EC990307.1|EC990307EST: GATAGACTTCCAGAAGCACGGATAGCTTTCATTGGAGATGGCCCTTATAG GGAGGAGCTGGAGAAAATGTTCTCTGGCATGCCTGCTGTGTTCACAGGGAT
genomic: GATAGACTTCCAGAAGCACGGATAGCTTTCATTGGAGATGGCCCTTATAGgtatgttctt ... ttctgggcagGGAGGAGCTGGAGAAAATGTTCTCTGGCATGCCTGCTGTGTTCACAGGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacggtcaagaaacctgcagtttttatttacaaaacatgccttctttctgggcagGGAGGAGCTGGAGAAAATGTTCTCTGGCATGCCTGCTGTGTTCACAGGGATGTTGCAAGGTGAGGAGCTCTCTCAGGCATACGCCAGCGGGGATGTTTTT
catgccttctttct CT-rich tract
tttttatttacaaaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttcttttgacatttaatgaggtacttattttctaaaattagttaaagaggccaatctctgagacaaccttggtataattctcatcgagttattcctcttatgaaaatctaccatgagcttcatagtacggtcaagaaacctgcagtttttatttacaaaacatgccttctttctgggcagGGAGGAGCTGGAGAAAATGTTCTCTGGCATGCCTGCTGTGTTCACAGGGATGTTGCAAGGTGAGGAGCTCTCTCAGGCATACGCCAGCGGGGATGTTTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT