Sequence
atgc intronic sequence ATGC exonic sequencegtttgcatctcatgctttatgcatcacagtatcacattgacgttttctagctttagatataccccatggagaaaatccttaagttctctcttttttgttaaaaaatacgtacaattttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGCGTTGATCCGAAAGTGGCGGCAGTAATCGAGTCCTGCTGGGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G059671_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g32610.2 (Oryza sativa), 3'ss of exon 14
gtttgcatctcatgctttatgcatcacagtatcacattgacgttttctagctttagatataccccatggagaaaatccttaagttctctcttttttgttaaaaaatacgtacaattttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGCGTTGATCCGAAAGTGGCGGCAGTAATCGAGTCCTGCTGGGTCAG
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gtttgtatctcctgttttcttcatcaca--------cggatattttccaacttcggacgaactgaattgaacaaagtct-------------------------------acctgttcacttgcagGTTGTAGCAGCTGTTGGTTTTAATGGGCGAAGGCTTGAAATTCCAAGTAGCGTTGATCCAAAAGTGGCGGCAATAATGGAATCCTGCTGGACAAA
upper sequence: GRMZM2G059671_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv13s0074g00430.t01 (Vitis vinifera), 3'ss of exon 13
gtttgcatctcatgctttatgcatcacagtatcacattgacgttttctagctttagatataccccatggagaaaatc-cttaagttctctcttttttgttaaaaa-atacg-tacaattttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGCGTTGATCCGAAAGTGGCGGCAGTAATCGAGTCCTGCTGGGTCAG
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-------------------------atggaagca-atgtgcatactctaa---tgaatgcattcctgcaagtggcttactctagtgttgacatatgactcaaatacatatgataggacggcttttgcagGTTGTAGCAGCTGTTGCTTTCAAGGGAAAAAGGCTTGAGATTCCAGCTGAAGTAAATCATCAAGTCGCCTACTTGATTGAGGCCTGCTGGGCTAAMapped 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|20802940|gb|BQ293990.1|BQ293990EST: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAG GTCGTTGCAGCGGTTGGT
genomic: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAGgtttgcatct ... ttacttgcagGTCGTTGCAGCGGTTGGT
EST:
gi|26456437|gb|CA828020.1|CA828020EST: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAG GTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGC
genomic: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAGgtttgcatct ... ttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGC
EST:
gi|20336958|gb|BQ172588.1|BQ172588EST: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAG GTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGC
genomic: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAGgtttgcatct ... ttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGC
EST:
gi|60337361|gb|DN204334.1|DN204334EST: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAG GTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGC
genomic: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAGgtttgcatct ... ttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGC
EST:
gi|19770367|gb|BQ035088.1|BQ035088EST: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAG GTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGC
genomic: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAGgtttgcatct ... ttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGC
EST:
gi|19770019|gb|BQ034740.1|BQ034740EST: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAG GTCGTTGCAGCGGTTGGTTTCAAGGGGCAAAGGCTTGAGATCCCAAGCAGC
genomic: GGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAGgtttgcatct ... ttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGC
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:
48 (upstream exon),
49 (downstream exon)
Score:
77CGAGCCCTCAAATGAGAAGTCTGATGTTTACAGCTTCGGTGTAATCTTATGGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAGgtttgcatct ... ttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGCGTTGATCCGAAAGTGGCGGCAGTAATCGAGTCCTGCTGGGTCAG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
54CGAGCCCTCAAATGAGAAGTCTGATGTTTACAGCTTCGGTGTAATCTTATGGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAGgtttgcatct ... ttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGCGTTGATCCGAAAGTGGCGGCAGTAATCGAGTCCTGCTGGGTCAG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
57CGAGCCCTCAAATGAGAAGTCTGATGTTTACAGCTTCGGTGTAATCTTATGGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAGgtttgcatct ... ttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGCGTTGATCCGAAAGTGGCGGCAGTAATCGAGTCCTGCTGGGTCAG
Block sizes:
42 (upstream exon),
49 (downstream exon)
Score:
24CGAGCCCTCAAATGAGAAGTCTGATGTTTACAGCTTCGGTGTAATCTTATGGGAGCTTATGACATTGCAGCAGCCATGGAGTAATTTAAATCCAGCTCAGgtttgcatct ... ttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGCGTTGATCCGAAAGTGGCGGCAGTAATCGAGTCCTGCTGGGTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaatccttaagttctctcttttttgttaaaaaatacgtacaattttacttgcagGTCGTTGCAGCGGTTGGTTTCAAGGGACAAAGGCTTGAGATCCCAAGCAGCGTTGATCCGAAAGTGGCGGCAGTAATCGAGTCCTGCTGGGTCAG
ttttactt CT-rich tract
ttttttgttaaaaaat TA-rich tract