Sequence
atgc intronic sequence ATGC exonic sequencegtaatttgtttagtaaggaagaactttgctttctttaggtgcggtacatccaacttattttgtgattttcatatcgttttcttttggttcatggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 20
gtaatttgtttagtaaggaagaactt-tgctttctttaggtgcggtacatccaacttattttgtgattttcatatcgttttcttttggttcatggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
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------------gtagttaactactcctgatgttgatatgtgcgaagcaattttgtc-cttaacgtggcgcaccttaatatcgttctttacattcaacagTGAGGATCCAGATATTCATTTCAAATACATAGAAGCAGCTGCTAGGACTGGACAGATCAAAGAAGTTGAACGTGTAACCAGGGAATCCAACTTTTATGAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 20
gtaatttgtttagtaaggaagaac-tttgctttctttaggtgcggtacatccaacttattttgtgattttcatatcgttttcttttggttcatggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
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------------gtagttaactacacctgatgttgatatgtgcgaagcaattttgtc-cttaacgtggcgcaccttaatatcgttctttacattcaacagTGAGGATCCAGATATTCATTTCAAATACATAGAAGCAGCTGCTAGGACTGGACAGATCAAAGAAGTTGAACGTGTAACCAGGGAATCCAACTTTTATGAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 19
gtaatttgtttagtaaggaagaactttgctttctttaggtgcggtacatccaact----------tattttgtgattt-------tcatatcgttttcttttggttcatggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
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gtaattccttcatttttatagaactgttttggctggtgggcaagtgatgccatttgtaaaggggatgttgtctgatatcatcagctaatatttttttccccctaaacttgggacagTGAGGATCCTGACATTCACTTTAAGTACATTGAAGCAGCTGCAAAGACTGGACAAATCAAAGAGGTTGAGCGTGTGACTAGAGAATCAAGTTTCTATGAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 20
gtaatttgtttagt--aaggaagaactttgctttctttaggtgcggtacatccaacttattttgtgattttcatatcgttttcttttg------gttc-----------atggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
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gtaattctttcatttggaaaaaaaacttgtttttctgttggtaattgacctc-attttattgagatattgtccgatgtatttctgctgatgtatgttcctctaaataatatggaacagTGAGGATCCTGACATTCACTTTAAGTACATTGAGGCAGCAGCAAAGACTGGTCAAATCAAGGAGGTTGAGCGTGTGACAAGAGAATCAAATTTCTATGAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 19
gtaatttgtttag---taaggaagaactttgctttctttaggtgcggtacatcc---------aacttattttgtgattttcatatcgttttcttttggttcatggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
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gtaactctttcatgtttttagaactgttttggctggtggacaagtgatgcaatttgtaaaggggatattgtctgctatcagctaatatttttttccctgaacttgggacagTGAGGATCCTGACATTCACTTCAAGTACATTGAGGCAGCAGCAAAGACTGGACAAATCAAAGAGGTTGAGCGTGTGACTAGAGAATCAAGTTTTTATGAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 20
gtaatttgtttagt---aaggaagaactttgctttctttaggtgcggtac---atccaac-------ttattttgtgattttc-----atatcgttttcttttggtt-catggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
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gtaattctttcatttggaaaaaaaaacttgtttttctgttggtaatagacctcatttaattgagatattatccaatgtatttctgctgatgtatgttcctctaaataatatggaacagTGAGGATCCTGATATTCACTTTAAGTACATTGAGGCAGCGGCAAAGACTGGTCAAATCAAGGAGGTTGAGCGTGTGACAAGAGAATCAAATTTCTATGAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 20
gtaatttgtttagtaaggaagaactttgctttctttaggtgcggtacatccaacttattttgtgattttcatatcgttttcttttggttcatggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
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gtaattt---tatcaagatcctgctgtcattcctgtaaacaagcaccatgcagcaatttgtatttttatgacttacaatgtcttccctctgtgtgatagTGAGGATCCTGAGATTCACTTCAAGTACATCGAAGCAGCTGCCAAGACTGGTCAAATAAAGGAGGTTGAGCGTGTGACTAGAGAGTCTAACTTTTATGAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 20
gtaatttgtttagtaaggaagaactttgctttctttaggtgcggtacatccaacttattttgtgattttcatatcgttttcttttggttcatggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
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gtgatatagataaaatctgatctcgtttctgtaaacaagcacgattcttgta-tttatatgcttatgtttacaatgtttctctctg-----tgcgatagTGAGGATCCTGAGATCCATTTCAAGTACATTGAAGCAGCTGCCAAGACTGGTCAAATAAAGGAGGTTGAGCGTGTAACTAGAGAGTCTAACTTCTATGAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: EFJ13237 (Selaginella moellendorffii), 3'ss of exon 20
gtaatttgtttagtaaggaagaactttgctttctttaggtgcggtacatccaacttat-tttgtgattttcatatcgttt-tcttttggttcatggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
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------------------------------------------------------gtatatccgtggttttaaaattgcatgtaatcaagtgtcttgtgcagCGAGGACCCGGATATTCACTTCAAATATATTGAAGCAGCAGCTAAAACGGGCCAACTGAAAGAGGTAGAGCGTGTCACCAGGGAATCGAATTTCTATGAT
upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: EFJ24508 (Selaginella moellendorffii), 3'ss of exon 20
gtaatttgtttagtaaggaagaactttgctttctttaggtgcggtacatccaacttat-tttgtgattttcatatcgttttcttttggtt-catggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
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------------------------------------------------------gtatatccgtggttttaaagttgcatgtaatcaattgtcttgtacagCGAGGACCCGGATATTCACTTCAAATATATTGAAGCAGCAGCTAAAACGGGCCAACTGAAAGAGGTAGAGCGTGTCACCAGGGAATCGAATTTCTATGATMapped 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|122689653|gb|EC942290.1|EC942290EST: AAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTTATTTGAGCTCAAG TGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGG
genomic: AAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTTATTTGAGCTCAAGgtaatttgtt ... catggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGG
EST:
gi|122690707|gb|EC956547.1|EC956547EST: AAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTTATTTGAGCTCAAG TGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGG
genomic: AAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTTATTTGAGCTCAAGgtaatttgtt ... catggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacatccaacttattttgtgattttcatatcgttttcttttggttcatggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
ttttcttttggttc CT-rich tract
ttattttgtgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttgtttagtaaggaagaactttgctttctttaggtgcggtacatccaacttattttgtgattttcatatcgttttcttttggttcatggaacagTGAGGATCCTGACATTCACTTCAAGTATATTGAAGCTGCTGCTAAAACTGGACAAATTAAGGAGGTTGAGCGTGTGACTCGAGAATCAAACTTCTATGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG