Sequence
atgc intronic sequence ATGC exonic sequencegtatgttcttataccaagtaatgctaggaagaaagtaacaatagtgtgtgtactaccttatactctcttttctgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G074530_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g58880.1 (Oryza sativa), 3'ss of exon 8
--------------------gtatgttcttataccaagtaatgctaggaagaaagtaacaata-gtgtgtgtactaccttatactctcttttctgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG
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gtatgttcttatgaagtaaggtataaacaaattcgcaata--gccaataggttagtaactggatgagtgggtatagtttaatgctctcttttctttcttccagATCAGAAGCCAAAGATTTATTGGGGGATGACTGGATTCAAAGGCATCGAAGAATTGTACAACAAAATGCAAATCATTATAGAAGGATTGCTTGGTCAAAG
upper sequence: GRMZM2G074530_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT5G52340.1 (Arabidopsis thaliana), 3'ss of exon 8
------gtatgttcttataccaagtaatgctaggaagaaagtaacaatagtgtgtgtactaccttatactctcttttc-tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG
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gtttggttctgtttcttcggctccatctttcttaaacagaaccagaaaagcctaaacataatcctgagttagagttacatttttcacagGTCAGAAGCAAAAGATTTATTAGGTGATGATTGGGTTCAAATACATCGAAGAATTGTACAACAACATGCAAATCAGTACAAGAGAGTTTCTTGGGCAAAG
upper sequence: GRMZM2G074530_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv08s0007g02340.t01 (Vitis vinifera), 3'ss of exon 8
-----gtatgttcttataccaagtaatgctaggaagaaagtaacaatagtgtgtgtactaccttatactctcttttctgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG
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gtttgttatatctttttagct--tgattgttgatctgaatttatgct-gtgtaaatagtttctcctttttattgttctcatccttagGTCAGAAGCAAAGGATTTGTTGGGGGATGATTGGGTGCAAATACACCGAAGGATTGTACAGCAGCATGCAAACCAGTATAAGAGGGTATCTTGGGCAAAGMapped 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|71432760|gb|DR813810.1|DR813810EST: CACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAG ATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
genomic: CACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAGgtatgttctt ... tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
EST:
gi|211149050|gb|FK958467.1|FK958467EST: TAACATTCACTATATTGTCAAATCTGTCCGCAG ATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
genomic: TAACATTCACTATATTGTCAAATCTGTCCGCAGgtatgttctt ... tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
EST:
gi|211149052|gb|FK958469.1|FK958469EST: CACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAR ATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
genomic: CACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAGgtatgttctt ... tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
EST:
gi|5740705|gb|AI948395.1|AI948395EST: C-CATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAG ATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
genomic: CACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAGgtatgttctt ... tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
EST:
gi|32925518|gb|CF030330.1|CF030330EST: CACATATTTTTGATGAACAACATTCACTATATTGTCAAATCTGTCCGCAG ATCAGAGGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
genomic: CACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAGgtatgttctt ... tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
EST:
gi|32926841|gb|CF031653.1|CF031653EST: CACATATTTTTGATGAACAACATTCACTATATTGTCAAATCTGTCCGCAG ATCAGAGGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
genomic: CACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAGgtatgttctt ... tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
EST:
gi|211159122|gb|FL458118.1|FL458118EST: CACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAG ATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
genomic: CACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAGgtatgttctt ... tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAG
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:
183AAAATAATTTAGAAGCAAAAGCAAAACAATACAAGGATCCTGCATTGATGCACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAGgtatgttctt ... tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
164AAAATAATTTAGAAGCAAAAGCAAAACAATACAAGGATCCTGCATTGATGCACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAGgtatgttctt ... tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
264AAAATAATTTAGAAGCAAAAGCAAAACAATACAAGGATCCTGCATTGATGCACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAGgtatgttctt ... tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
120AAAATAATTTAGAAGCAAAAGCAAAACAATACAAGGATCCTGCATTGATGCACATATTTTTGATGAATAACATTCACTATATTGTCAAATCTGTCCGCAGgtatgttctt ... tgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagaaagtaacaatagtgtgtgtactaccttatactctcttttctgtcactcagATCAGAAGCCAAAGATTTGTTGGGTGATGACTGGATTCAAAGGCACCGAAGGATTGTACAACAAAATGCCAATCAGTATAGAAGGATTGCTTGGGCGAAG
aagtaac putative branch site (score: 120)
ctaccttatactctct putative PPT
taacaata TA-rich tract