Sequence
atgc intronic sequence ATGC exonic sequence...aaggattatatgcttgatacctttcttgtatggctacaactctctctctctctcttaattataaatatgacatgctgttttcatttatttaaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCATACTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os10g28320.3 (Oryza sativa), 3'ss of exon 4
aaggattatatgcttgatacctttcttgtatggctacaactctctctctctctcttaattataaatatgacatgctgttttcatttatttaaa----------tatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGC--ATACTTG-------
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----------tgttagctcctattcaagtttgtgcatcatttactccttgttcattgaacctccacatcgcttcaccgtgccactcattcgaagcattacttgtgttcagGGAGCTTGGCATTGGAATTGTTCCATATAGCCCAATTGGCCGTGGCTTCTTTGCTGGCAGGGCTGCTGTACAGAGCATACCATCTGAGAGTTGGCTGGTA
upper sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os10g28320.1 (Oryza sativa), 3'ss of exon 4
aaggattatatgcttgatacctttcttgtatggctacaactctctctctctctcttaattataaatatgacatgctgttttcatttatttaaa----------tatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGC--ATACTTG----
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----------tgttagctcctattcaagtttgtgcatcatttactccttgttcattgaacctccacatcgcttcaccgtgccactcattcgaagcattacttgtgttcagGGAGCTTGGCATTGGAATTGTTCCATATAGCCCAATTGGCCGTGGCTTCTTTGCTGGCAGGGCTGCTGTACAGAGCATACCATCTGAGAGTTGGCTG
upper sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
aaggattatatgcttgatacctttcttgtatggctacaactctctctctctct----cttaattataaatatgacatgctgttttcatttat--ttaaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCATACTTG------
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---gaacaaggtcttaatacatat---gtattgttacaaatacgtaaccaaacaaagcctaccggatattatcatgtattaagattctttatgctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
upper sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G813143_T02 (Zea mays), 3'ss of exon 4
aaggattatatgcttgatacctttcttgtatggctacaactctctctctctctcttaattataaatatgacatg-----ctgttt-tcatttatttaaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCATACTTG------
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-----ttgcaagttctaattaacttatgcttcatttttcttatctttggttcgttgaac-atcgatatcatgcatttatctgtttgtcataaatgcttgcattcagGGAGCTTGGTATTGGAATAGTTCCATATAGCCCACTTGGCCGTGGCTTCTTTGCTGGCAGGGCAGCTGTAGAACGTGTTCCATCAGAAAGTCTATTG
upper sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G43360.1 (Glycine max), 3'ss of exon 4
aaggattatatgcttgatacctttcttgtatggctacaactctctctctctctcttaattataa---atatgacatgctgtt-ttcatttatttaaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCA--TACTTG----
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----tttaatcactggctacatgtgaaaagaggttaaattaagagaaataaaataaaattaaaatgcacgttacttactttggtaaagctttttattgatacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAACTGTGTCAACAGTTAGCTCCCTG
upper sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G40860.4 (Glycine max), 3'ss of exon 4
-------aaggattatatgcttgatacctttcttgtatggcta------caactctctctctctctcttaattataaatatgacatgctgt--tttcatttatttaa-----atatg-----cagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCATACTTG---------
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gttagttcaagttcatggcactgcagctcttcttgaaaggagggaaaagaaagtggtttagttgttgttggctgtatttttgtgttaatgcgacttcaattttttaatgcttatattggtttcagGGAACTTGGTATTGGAATTGTACCATATAGTCCTCTTGGTCGTGGCTTTTTTGGCGGCAAAGGAGTTGTGGAAAATGTGCCTACAAATAGCTCCCTGGTA
upper sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G40860.1 (Glycine max), 3'ss of exon 4
-------aaggattatatgcttgatacctttcttgtatggct------acaactctctctctctctcttaattataaatatgacatgctgt--tttcatttatttaa-----atatg-----cagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCATACTTG------
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gttagttcaagttcatggcactgcagctcttcttgaaaggagggaaaagaaagtggtttagttgttgttggctgtatttttgtgttaatgcgacttcaattttttaatgcttatattggtttcagGGAACTTGGTATTGGAATTGTACCATATAGTCCTCTTGGTCGTGGCTTTTTTGGCGGCAAAGGAGTTGTGGAAAATGTGCCTACAAATAGCTCCCTG
upper sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G40880.3 (Glycine max), 3'ss of exon 4
-------------------------------------------------------------------------------------------aaggattatatgctt-gatacctttcttgtatggctacaact-----ctctctctctctcttaattataaat--atgacatgctgttttcatttatttaaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCATACTTG------
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gtcagttcaacttccccaaattcatagtaatgtacagctctcataactattttttcactaataaataaataatttgaatttctgtttaattatgagccacatgaaaagagggtagaaaaataagactaaaaaaattggttagctagattttttgtttatgttttaatgagatcactttgttaaaagcttttattgatagAGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAAATATGCCTGCAAGTACAGTCCTG
upper sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G40880.4 (Glycine max), 3'ss of exon 5
aaggattatatgcttgatacctttcttgtatggctacaactctctctctctctcttaattataaatatgacatgctgttttcatttatttaaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCATACTTG------
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--------------------aaaaattggttagcta-gattttttgtttatgttttaat---------gagatcactttgttaaaagcttttattgatagagagcttggcattggaattgtaccatatagCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAAATATGCCTGCAAGTACAGTCCTG
upper sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G27130.1 (Glycine max), 3'ss of exon 5
aaggattatatgcttgatacctttcttgtatggctacaactctctctctctctcttaattataaatatgacatgctgttttcat-ttatttaaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCATACTTG
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---------------------------gttaaattaagagaaattaaattaaattaaa--atgcacgttacttactttggtaaagctttttattgatacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTG--------------------------------------Mapped 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|110377357|gb|EC942419.1|EC942419EST: TGGTCACTCTGGAGTCGTGATATTGAGGACGAGATAATTTCACTTTGCAG GGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTT
genomic: TGGTCACTCTGGAGTCGTGATATTGAGGACGAGATAATTCCACTTTGCAGgtttgttcag ... aaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTT
EST:
gi|30253253|gb|CB970804.1|CB970804EST: TGGTCACTCTGGAGTCGTGATATTGAGGACGAGATAATTCCACTTTGCAG GGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTT
genomic: TGGTCACTCTGGAGTCGTGATATTGAGGACGAGATAATTCCACTTTGCAGgtttgttcag ... aaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctctctcttaattataaatatgacatgctgttttcatttatttaaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCATACTTG
tcttaat putative branch site (score: 3)
tgttttcatttattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaggattatatgcttgatacctttcttgtatggctacaactctctctctctctcttaattataaatatgacatgctgttttcatttatttaaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCATACTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - tgcttga
- - - - - - - - - - - - - tgtatgg
- - - - - - - - - - - - - - - - -ctacaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgct