Sequence
atgc intronic sequence ATGC exonic sequence...agtggttttatttatttatcaactgtttcattatcgctttggtagctaatgttcacttcttgcttctataatagatataccaatgttgctctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCGAAAAGCATTAGCCACGTAATCATTGGCTTAAAGACTGTCAAAGGGACTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G032267_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g08170.1 (Oryza sativa), 3'ss of exon 3
-------------------------------------------------agtggttttatttatttatcaactgtttc-----attatcgctttggtagctaatgt-------tcacttcttgcttctataatag-atataccaatgttgctctgt-tcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCGAAAAGCATTAGCCACGTAATCATTGGCTTAAAGACTGTCAAAGGGACTA
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gtaagcacaccatatatgctaatttttaagtttgcactaagatattgttcttgaatttgtgcattatttcattttctcttgatattagcacatttataactgatatgatattctcactgtctgtttctaaaataatatatatttgtgcttcattgccttttagGTTACTGAACTTTCCCCAGAAGAGGCTGAGAGTACAACAGGTGGATATGGAAAAAGCATTAGCCATGTAATCATAGGTCTGAAGACTGTAAAAGGGACTA
upper sequence: GRMZM2G032267_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g62040.1 (Oryza sativa), 3'ss of exon 3
--------------------------------------------agtggtttt--atttatttatca-actgtttcattatcgctttggtagctaatgttcacttcttgcttctataatag-atataccaatgttgctctgt-tcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCGAAAAGCATTAGCCACGTAATCATTGGCTTAAAGACTGTCAAAGGGACTA
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gtaagcacatagttttagctagttttttaagtttgtgcaaggatagtgttcttgaattacgttttcacactcattcataactgatacggta-----ttcccattgtctgtttctaaaataatataaaactgtgcttcattgccttttagGTTACTGAACTTTCGCCAGAAGAAGCTGAGAGTACAACAAGTGGATATGGAAAAAGCATTAGCCATGTAATCATAGGTCTGAAGACTGTAAAAGGGACTA
upper sequence: GRMZM2G032267_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 3
------agtggtttta---tttatttatcaactgtttcattatcgctttggtagctaatgttcacttcttgcttctataatagatataccaat--gttgctctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCGAAAAGCATTAGCCACGTAATCATTGGCTTAAAGACTGTCAAAGGGACTA-------
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gttatcactgattatgagttttttttgttaatagtttgact-tgccagtaatatc--atgatctttttgttgtattatcatctttaaatcaagtagcttctct-tttttaggtgacagAACTCTCCCCAGAAGAAACTGAGAGCACAACAGGTGGTTATGGAAAAAGCATTAGCCATGTGATTATTGGATTAAAAACTGTGAAGGGAACCAAGCAGCTMapped 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|8102879|gb|AW927557.1|AW927557EST: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAG GTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCG
genomic: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAGgtaagcaatg ... ctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCG
EST:
gi|32933015|gb|CF037827.1|CF037827EST: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAG GTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCG
genomic: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAGgtaagcaatg ... ctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCG
EST:
gi|32933753|gb|CF038565.1|CF038565EST: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAG GTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCG
genomic: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAGgtaagcaatg ... ctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCG
EST:
gi|8102878|gb|AW927556.1|AW927556EST: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAG GTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCG
genomic: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAGgtaagcaatg ... ctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCG
EST:
gi|78103432|gb|DV521860.1|DV521860EST: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAG GTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCG
genomic: GAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAGgtaagcaatg ... ctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCG
RNA-Seq data
ATGC Supported by RNA-Seq exonic block that spans over the splice site
atgs Truncated intron sequence
Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.
Found data for 4 RNA-Seq libraries.
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
166GTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAGgtaagcaatg ... ctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCGAAAAGCATTAGCCACGTAATCATTGGCTTAAAGACTGTCAAAGGGACTA
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
91GTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAGgtaagcaatg ... ctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCGAAAAGCATTAGCCACGTAATCATTGGCTTAAAGACTGTCAAAGGGACTA
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
87GTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAGgtaagcaatg ... ctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCGAAAAGCATTAGCCACGTAATCATTGGCTTAAAGACTGTCAAAGGGACTA
Block sizes:
48 (upstream exon),
43 (downstream exon)
Score:
45GTACTCCTCAGAGGTCAAGAAAACTGAGGTGCTGATGGAAAATTTCCGTAGAGCTATAGGTTTGCGTATAAAGGAAAACAAAGAGGTTTATGAAGGAGAGgtaagcaatg ... ctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCGAAAAGCATTAGCCACGTAATCATTGGCTTAAAGACTGTCAAAGGGACTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaatgttcacttcttgcttctataatagatataccaatgttgctctgttcctagGTTATTGAACTTTCCCCAGAAGAGGCTGAGAGCACAACTGGTGGATATGCGAAAAGCATTAGCCACGTAATCATTGGCTTAAAGACTGTCAAAGGGACTA
agctaat putative branch site (score: 45)
ctctgttcct putative PPT
ttctataatagatata TA-rich tract