Sequence
atgc intronic sequence ATGC exonic sequence...tggtgtcattgtttttgccaaataatcttattctagtcattcatttgaggtttttcatttctccctttttggttgtggtttgatatgattattgctgcagTGCTCACCTGGAGTGGAACCTTGATGGTCTGCTAGAAAAGATATGGGAGTATCTTGATTTAACTCGCATATACACAAAGCCCAAGGGAATGAATCCCGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g01620.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G15180.2 (Glycine max), 3'ss of exon 7
------tggtgtcattgtttttgccaaataatcttattctagtcattcatttg-aggtttttcatttctccctttttggttgtggtttgatatgattattgctgcagTGCTCACCTGGAGTGGAACCTTGATGGTCTGCTAGAAAAGATATGGGAGTATCTTGATTTAACTCGCATATACACAAAGCCCAAGGGAATGAATCCCGAT
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ctgtcatgtttcccccatttctgttg--tgatttt--tgcaataattgattcacaaagttgttttcttaataaatatgtgtgtaactttctat--ctatt-cttcagTGCACACCTTGAGTGGAACCTTGATGGTCTTCTGGAGAAAATTTGGGAATATCTCGACTTAACTCGTATTTATACTAAACCTAAAGGGATGAATCCTGAT
upper sequence: Vv07s0031g01620.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G39690.1 (Glycine max), 3'ss of exon 7
tggtgtcattgtttttgccaaataatcttattctagtcattcatttgaggtttttca-----tttctccctttttggttgtg-gtttgatatgattattgctgcagTGCTCACCTGGAGTGGAACCTTGATGGTCTGCTAGAAAAGATATGGGAGTATCTTGATTTAACTCGCATATACACAAAGCCCAAGGGAATGAATCCCGAT
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----actgtcacgtttcccccat--ttctgttgtgatttttgcaataaatttattcacaaagttgttttcttaataaatatgtgtaattttctatctatgcttcagTGCACATCTGGAGTGGAACCTTGATGGTCTTCTGGAGAAAATTTGGGAATATCTCAACTTAACTCGTATTTATACTAAACCTAAAGGGATGAATCCTGAT
upper sequence: Vv07s0031g01620.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G39520.1 (Arabidopsis thaliana), 3'ss of exon 7
tggtgtcattgtttttgccaaataatcttattctagtcattcatttgaggtttttcatttctccctttttggttgtggtttgatatgattattgctgcagTGCTCACCTGGAGTGGAACCTTGATGGTCTGCTAGAAAAGATATGGGAGTATCTTGATTTAACTCGCATATACACAAAGCCCAAGGGAATGAATCCCGAT
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-----------------gtaaatgttgttaaattaccggcaggatttgcgataaacttgtttacttttgccattaagatataaatttatttatcttgcagTGCGCATCTGGAGTGGAATCTTGATGGACTTCTGGACAAGATATGGGAATACTTGGATCTAACTCGAATCTACACAAAACCAAAGGCAATGAATCCGGATMapped 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|71882070|gb|DT031125.1|DT031125EST: CTTGAAGAGTTGGAGGTTCTGGATAAGCTTCCTCACTACTGTCCAGTCAG TGCTCACCTGGAGTGGAACCTTGATGGTCTGCTAGAAAAGATATGGGAGTA
genomic: CTTGAAGAGTTGGAGGTTCTAGATAAGCTTCCTCACTACTGTCCAGTCAGgtataattag ... attgctgcagTGCTCACCTGGAGTGGAACCTTGATGGTCTGCTAGAAAAGATATGGGAGTA
EST:
gi|29783158|gb|CB349145.2|CB349145EST: CTTGAAGAGTTGGAGGTTCTAGATAAGCTTCCTCACTACTGTCCAGTCAG TGCTCACCTGGAGTGGAACCTTGATGGTCTGCTGGAAAAGATATGGGAGTA
genomic: CTTGAAGAGTTGGAGGTTCTAGATAAGCTTCCTCACTACTGTCCAGTCAGgtataattag ... attgctgcagTGCTCACCTGGAGTGGAACCTTGATGGTCTGCTAGAAAAGATATGGGAGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaggtttttcatttctccctttttggttgtggtttgatatgattattgctgcagTGCTCACCTGGAGTGGAACCTTGATGGTCTGCTAGAAAAGATATGGGAGTATCTTGATTTAACTCGCATATACACAAAGCCCAAGGGAATGAATCCCGAT
gtttgat putative branch site (score: 5)
tttgatatgattatt 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
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tggtgtcattgtttttgccaaataatcttattctagtcattcatttgaggtttttcatttctccctttttggttgtggtttgatatgattattgctgcagTGCTCACCTGGAGTGGAACCTTGATGGTCTGCTAGAAAAGATATGGGAGTATCTTGATTTAACTCGCATATACACAAAGCCCAAGGGAATGAATCCCGAT
tggtgtc
- - - - - - - - - caaataa
- - - - - - - - - - - - - - - - - - -cattcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtttg