Sequence
atgc intronic sequence ATGC exonic sequencegtaagttattttggactttttttgccatttttatttaagttaatagaattaaacatatctaagcaaataaccatttttcagTGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGCTGCCCAACATCGTCTTCTTGAGGCAGAGTATGATGGTTACGCTAGTACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G303431_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g38800.1 (Oryza sativa), 3'ss of exon 4
--------------------------------------gtaagttattttgg--actttttttgccatttttatttaagttaatagaatta-aacatatctaagcaaata--accatttttcagTGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGCTGCCCAACATCGTCTTCTTGAGGCAGAGTATGATGGTTACGCTAGTACA---------
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gtaagttatttctgtacttattttgcttaaatttaccagtttgtccatttgattatattgtgttcaagtgcctttgaaatttgaaaatttagaacatttctaagtcaatactgttggcttgcagTGGTGATTGGGC---------ACGTGACCCAAGAATTATTGCTGTAGCGGCTGCACAACGTCGTCTTCTTGAAACTGAGTATGATGAATATGCTGGTACTGATGCTAGTMapped 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|32868616|gb|CF008298.1|CF008298EST: TACACTGCGCCATTTTTTGTTCAGCCAGATGAGACAACCATAGACATTGA TGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGC
genomic: TACACTGCGCCACCTCGTGTTCAGCCAGATGAGACAACCATAGACATTGAgtaagttatt ... catttttcagTGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGC
EST:
gi|109179339|gb|EC379935.1|EC379935EST: TACACTGCGCCACCTCGTGTTCAGCCAGATGAGACAACCATAGACATTGA TGGTGATTTGGTTATGGATTTGCGAGACCCAAGGGATTCTTGCTGTAGCAG
genomic: TACACTGCGCCACCTCGTGTTCAGCCAGATGAGACAACCATAGACATTGAgtaagttatt ... catttttcagTGGTGATTTGGTTATGGATTTGCGAGACCCAAGG-ATTCTTGCTGTAGCAG
EST:
gi|32858443|gb|CD998124.1|CD998124EST: TACACTGCGCCACCTCGTGTTCAGCCAGATGAGACAACCATAGACATTGA TGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGC
genomic: TACACTGCGCCACCTCGTGTTCAGCCAGATGAGACAACCATAGACATTGAgtaagttatt ... catttttcagTGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGC
EST:
gi|32919905|gb|CF024717.1|CF024717EST: TACACTGCGCCACCTCGTGTTCAGCCAGATGAGACAACCATAGACATTGA TGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGC
genomic: TACACTGCGCCACCTCGTGTTCAGCCAGATGAGACAACCATAGACATTGAgtaagttatt ... catttttcagTGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGC
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:
311GAATACAAGCCAGGTTACACTGCGCCACCTCGTGTTCAGCCAGATGAGACAACCATAGACATTGAgtaagttatt ... catttttcagTGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGCTGCCCAACATCGTCTTCTTGAGGCAGAGTATGATGGTTACGCTAGTACA
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
569GAATACAAGCCAGGTTACACTGCGCCACCTCGTGTTCAGCCAGATGAGACAACCATAGACATTGAgtaagttatt ... catttttcagTGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGCTGCCCAACATCGTCTTCTTGAGGCAGAGTATGATGGTTACGCTAGTACA
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
805GAATACAAGCCAGGTTACACTGCGCCACCTCGTGTTCAGCCAGATGAGACAACCATAGACATTGAgtaagttatt ... catttttcagTGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGCTGCCCAACATCGTCTTCTTGAGGCAGAGTATGATGGTTACGCTAGTACA
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
304GAATACAAGCCAGGTTACACTGCGCCACCTCGTGTTCAGCCAGATGAGACAACCATAGACATTGAgtaagttatt ... catttttcagTGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGCTGCCCAACATCGTCTTCTTGAGGCAGAGTATGATGGTTACGCTAGTACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttatttaagttaatagaattaaacatatctaagcaaataaccatttttcagTGGTGATTTGGTTATGGATTTGCGAGACCCAAGGATTCTTGCTGTAGCAGCTGCCCAACATCGTCTTCTTGAGGCAGAGTATGATGGTTACGCTAGTACA
aaataac putative branch site (score: 304)
ccatttttc CT-rich tract
tatttaagttaataga TA-rich tract