Sequence
atgc intronic sequence ATGC exonic sequencegtacagtttgtgtatgaaatatagtactatacaatttttaaccaaaaaatgatagctacaagctcagttacaaattttctttctatgtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCTTTTAGCTTGCCCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G305254_T04 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os03g58240.1 (Oryza sativa), 3'ss of exon 11
gtacagtttgtgtatgaaatatagtactatacaatttttaaccaaaaaatgatagctacaagctcagttacaaattttctttctatgtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCTTTTAGCTTGCCCCAG
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gtacagttatt--------tacagtgc-gtacatttttta-ccagaagacaatgaatccca---ctgcctcaa-cttgatttctgtgc-tttttagGTTAATCAAATTAGAGATTCTTTGGCAGTTATGGGCAACAACAGCACTGCTTTTAGCCTGCCCCAG
upper sequence: GRMZM2G305254_T04 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA02G16130.1 (Glycine max), 3'ss of exon 12
---------------------------------------------------------------gtacagtttgtgtatgaaatatagtactatacaatttttaaccaaaaaatgatagctacaagctcagttacaaattttctttctatgtgttt------ttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCTTTTAGCTTGCCCCAG
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gtttgttttaaagcatatgatctgatggaaggctttgtttactatttaatgcagggaacaaaaatattgatgtggtattttatcttctaaaattcaatttccaattatcagtagaatagtacagtctggaatatgttttataacactaaaagtcaacttcatcagGTCAATCAAATCCGGGATTCATTGGCTATTATGGGTGACAACAGCACTGCCTTTAGCTTACCGCAA
upper sequence: GRMZM2G305254_T04 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA10G03660.1 (Glycine max), 3'ss of exon 12
----------------------------------------------------------------------------gtacagtttgtgtatgaaatatagtactatacaatttttaaccaaaaaatgatagctacaagctcagttacaaattttctttctat------------gtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCTTTTAGCTTGCCCCAG
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gtatggttttccatttgttttaaagcaaatgatctgatggaaggctttgtttactatttaattgcagggaacaaaaatattgatatggtattttatcttctaaaattcaatttccgattatcagtaaaatagtactagtctggaattgaatatgttttataacactaaaagtcaacttcgtcagGTCAATCAAATCCGAGATTCATTGGCTGTTATGGGTGACAACAGTACTGCCTTTAGCTTACCGCAAMapped 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|18963438|gb|BM660435.1|BM660435EST: TAATGGTGACAGATATATTAATGAG GTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCT
genomic: TAATGGTGACAGATATATTAATGAGgtacagtttg ... gtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCT
EST:
gi|19057930|gb|BM736597.1|BM736597EST: TAATGGTGACAGATATATTAATGAG GTCAATCAAATCCGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCT
genomic: TAATGGTGACAGATATATTAATGAGgtacagtttg ... gtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCT
EST:
gi|160481497|gb|EY254329.1|EY254329EST: TAATGGTGACAGATATATTAATGAG GTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCT
genomic: TAATGGTGACAGATATATTAATGAGgtacagtttg ... gtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCT
EST:
gi|18963930|gb|BM660710.1|BM660710EST: TAATGGTGACAGATATATTAATGAG GTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCT
genomic: TAATGGTGACAGATATATTAATGAGgtacagtttg ... gtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCT
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:
49 (upstream exon),
49 (downstream exon)
Score:
29GTGACAGATATATTAATGAGgtacagtttg ... gtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCTTTTAGCTTGCCCCAG
Block sizes:
38 (upstream exon),
44 (downstream exon)
Score:
12GTGACAGATATATTAATGAGgtacagtttg ... gtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCTTTTAGCTTGCCCCAG
Block sizes:
49 (upstream exon),
45 (downstream exon)
Score:
23GTGACAGATATATTAATGAGgtacagtttg ... gtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCTTTTAGCTTGCCCCAG
Block sizes:
45 (upstream exon),
49 (downstream exon)
Score:
26GTGACAGATATATTAATGAGgtacagtttg ... gtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCTTTTAGCTTGCCCCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccaaaaaatgatagctacaagctcagttacaaattttctttctatgtgtttttagGTCAATCAAATACGAGATTCTTTGGCAGTTATGGGCAACCACAGCACTGCTTTTAGCTTGCCCCAG
ttttctttctatgt CT-rich tract
ttacaaattttcttt TA-rich tract