Sequence
atgc intronic sequence ATGC exonic sequence...gtacaatagtcaattatattttatttgcaccatattcactcatgcgattgttttatggttattgcttcctgatcttgttccttgtttgttctgagtgcagGCCCTTGATACATTTAATACAGCCGTTGTATCTCCCATCTACTATGTTATGTTTACATCACTAACCATTTTGGCTAGTGTGATCATGTTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g00720.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G28940.1 (Glycine max), 3'ss of exon 6
gtacaatagtcaattatattttatttgcaccatattcactcatgcg-attgttttatggttattgcttcctgatcttgttccttgtttgtt-ctgagtgcagGCCCTTGATACATTTAATACAGCCGTTGTATCTCCCATCTACTATGTTATGTTTACATCACTAACCATTTTGGCTAGTGTGATCATGTTCAAG
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--actgtcaccatttttttttttgggggggggggggggttgatgaatagttttttctgctttataattcatgtgataatatttttttcatttctgcaatcagGCACTGGATACTTTTAATACGGCAGTGGTATCTCCCATATATTATGTTATGTTCACTACATTTACCATTGTGGCTAGTGTTATTATGTTTAAG
upper sequence: Vv12s0035g00720.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G00560.1 (Glycine max), 3'ss of exon 6
gtaca-atagtcaattatattt-tatttgcaccat--attcactcatgcgattgttttatggttattgcttcctgatcttgttccttgtttgttct-gagtgcagGCCCTTGATACATTTAATACAGCCGTTGTATCTCCCATCTACTATGTTATGTTTACATCACTAACCATTTTGGCTAGTGTGATCATGTTCAAG
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ttacatattgtcacctccatttatatttttgggattgatgaaaagttccttcttttttataattcatg-----tgataatatatttttttcatttttgcaatcagGCACTGGATACTTTTAATACGGCAGTGGTATCTCCTATATATTATGTTATGTTCACAACATTTACCATTGTGGCTAGTGTTATTATGTTTAAG
upper sequence: Vv12s0035g00720.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ15113 (Selaginella moellendorffii), 3'ss of exon 6
gtacaatagtcaattatattttatttgcaccatattcactcatgcgattgttttatggttattgcttcctgatc-ttgttccttgtttgttctgagtgcagGCCCTTGATACATTTAATACAGCCGTTGTATCTCCCATCTACTATGTTATGTTTACATCACTAACCATTTTGGCTAGTGTGATCATGTTCAAG
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----------------------------------gtaactcg-gtcattttcattttttccttgtttcttttccgttgctcatacaaggttttccttgcagGCGTTAGATACTTTTAATACTGCAGTTGTATCTCCAATTTACTATGTCATGTTTACCTCCTTGACAATCGTAGCTAGCGTCATCATGTTCAAG
upper sequence: Vv12s0035g00720.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ16080 (Selaginella moellendorffii), 3'ss of exon 6
gtacaatagtcaattatattttatttgcaccatattcactcatgcgattgttttatggttattgcttcctgatc-ttgttccttgtttgttctgagtgcagGCCCTTGATACATTTAATACAGCCGTTGTATCTCCCATCTACTATGTTATGTTTACATCACTAACCATTTTGGCTAGTGTGATCATGTTCAAG
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----------------------------------gtaactcggtcattttcatttctttccttgtttctttgccgttgctcatacaaggttttccttgcagGCGTTAGATACTTTTAATACTGCAGTTGTATCTCCCATTTACTATGTCATGTTTACCTCCTTGACAATCGTAGCTAGCGTCATCATGTTCAAGMapped 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|27755040|gb|CB035795.1|CB035795EST: CTATAGTTGTAATTACTTGTGTAATTACCCAAATGAACTATCTAAACAAG GCCCTTGATACATTTAATACAGCCGTTGTATCTCCCATCTACTATGTTATG
genomic: CTATAGTTGTAATTACTTGTGTAATTACCCAAATGAACTATCTAAACAAGgtagagtgcc ... ctgagtgcagGCCCTTGATACATTTAATACAGCCGTTGTATCTCCCATCTACTATGTTATG
EST:
gi|110713706|gb|EE089862.1|EE089862EST: CTATAGTTGTAATTACTTGTGTAATTACCCAAATGAACTATCTAAACAAG GCCCTTGATACATTTAATACAGCCGTTGTATCTCCCATCTACTATGTTATG
genomic: CTATAGTTGTAATTACTTGTGTAATTACCCAAATGAACTATCTAAACAAGgtagagtgcc ... ctgagtgcagGCCCTTGATACATTTAATACAGCCGTTGTATCTCCCATCTACTATGTTATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattgttttatggttattgcttcctgatcttgttccttgtttgttctgagtgcagGCCCTTGATACATTTAATACAGCCGTTGTATCTCCCATCTACTATGTTATGTTTACATCACTAACCATTTTGGCTAGTGTGATCATGTTCAAG
tcctgat putative branch site (score: 3)
ttccttgtttgttct putative PPT
ttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaatagtcaattatattttatttgcaccatattcactcatgcgattgttttatggttattgcttcctgatcttgttccttgtttgttctgagtgcagGCCCTTGATACATTTAATACAGCCGTTGTATCTCCCATCTACTATGTTATGTTTACATCACTAACCATTTTGGCTAGTGTGATCATGTTCAAG
- - - - - - - - - - - - -tgcacca
- - - - - - - - - - - - - - - - - - - ctcatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttcc