Sequence
atgc intronic sequence ATGC exonic sequence...tatatagtaaccattgtctaagattcttttaagttcaatcccacatttcttattattttttgcatcatgtcctacttcattgatatctgactatcaacagATGGGCTCTTACTCACCCTTTGTCAGTTAAAGATTATGAGGAGTTGAAGAAAAAGCAAATGAAGCCTGATTTCTTGGATATGGTCCCTTGGTATTCGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 4
--tatatagtaaccattgtctaagattcttttaagttcaatcccacatttcttattattttttgcatcatgtcctacttcattgatatctgacta-tcaacagATGGGCTCTTACTCACCCTTTGTCAGTTAAAGATTATGAGGAGTTGAAGAAAAAGCAAATGAAGCCTGATTTCTTGGATATGGTCCCTTGGTATTCGGG
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ctggcattgcattt-tcaaattacatagtattagtatcaaccatttttttttctcattatttcacttaatattttcatt--tttatgtctgaaaaatcaacagATGGGCTCTCACTCACCCATTATCTGTTAAAGAATATGAGAAGTTGAAGAAGAAGCAAATGAAGCCTGATTTTTTAGACATGGTTCCATGGTACTCTGG
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 4
--tatatagtaaccattgtctaagattcttttaagt-tcaatcccacatttcttattatt-ttttgcatcatgtcctacttcattgatatctgacta-tcaacagATGGGCTCTTACTCACCCTTTGTCAGTTAAAGATTATGAGGAGTTGAAGAAAAAGCAAATGAAGCCTGATTTCTTGGATATGGTCCCTTGGTATTCGGG
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ctggtattgcattt-tcaaattacatagtattgagtatcaa--ccattttttttctcattatttcacttgatatctttgtt--tttatgtctgaaaaatcaacagATGGGCTCTCACTCACCCATTATCTGTTAAAGAATATGAGAAGTTGAAGAAGAAACAAATGAAGCCTGATTTTTTAGACATGGTTCCTTGGTACTCTGG
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G23000.1 (Arabidopsis thaliana), 3'ss of exon 4
--------tatatagtaaccattgtctaagattcttttaagttcaatcccacatttc---ttattattttttgcatcatgtcctacttcattgatatctgactatcaacagATGGGCTCTTACTCACCCTTTGTCAGTTAAAGATTATGAGGAGTTGAAGAAAAAGCAAATGAAGCCTGATTTCTTGGATATGGTCCCTTGGTATTCGGG
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gtaagtgtcaagctgtcagcttgggcatagttttttgttaaatgaatgttgtaaataaaatgattactgtttttacaatgataatgtacgttttcgttgtacggtta---gGTGGGCACTGGCACACCCTCTGTCTGTCGAAAATTATGAGAAGTTGAAGAGACAACAAATGAAACCTAATTTCTTAGATATGGTTCCTTGGTATTCAGG
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 5
-------------tatatagtaaccattgt-ctaagattct--tttaagttcaatcccacattt-------cttattattttttgcatc---atgtcctactt-cattgatatctgactatcaa---cagATGGGCTCTTACTCACCCTTTGTCAGTTAAAGATTATGAGGAGTTGAAGAAAAAGCAAATGAAGCCTGATTTCTTGGATATGGTCCCTTGGTATTCGGG
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gtaagttatctatggcataatacctgtcaaattaatattgcaattgaggatcaacagtacattcatatgaacaactttgttcttacattcaaatggcatgtttatcttaaagttttaatatgctgtttagGTGGGCTCTAACACATCCTCTGTCAGTCGACAAATATGAGAAGCTGAAGAATCAGCAATTGAAACCTGATTTCTTAGATATGGTTCCTTGGTATTCAGGMapped 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|254916699|gb|GR905525.1|GR905525EST: ATATTTATAGGCCTCTATATTGCCAACTATGTGGTGGAAAGATCATCAGG ATGGGCTCTTACTCACCCTTTGTCAGTTAAAGATTATGAGGAGTTGAAGAA
genomic: ACATTTATAGGCCTCTATATTGCCAACTATGTGGTGGAAAGATCATCAGGgtgagtagtc ... ctatcaacagATGGGCTCTTACTCACCCTTTGTCAGTTAAAGATTATGAGGAGTTGAAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttattattttttgcatcatgtcctacttcattgatatctgactatcaacagATGGGCTCTTACTCACCCTTTGTCAGTTAAAGATTATGAGGAGTTGAAGAAAAAGCAAATGAAGCCTGATTTCTTGGATATGGTCCCTTGGTATTCGGG
atctgac putative branch site (score: 3)
tattattttttgcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatatagtaaccattgtctaagattcttttaagttcaatcccacatttcttattattttttgcatcatgtcctacttcattgatatctgactatcaacagATGGGCTCTTACTCACCCTTTGTCAGTTAAAGATTATGAGGAGTTGAAGAAAAAGCAAATGAAGCCTGATTTCTTGGATATGGTCCCTTGGTATTCGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - gtaacca
- - - - - - - - - - - - - - - - - - - tcccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctacttc