Sequence
atgc intronic sequence ATGC exonic sequencegtatttacttgatagcccttcaggaaatacataattaatttcattacctgcagttactaacacatttacccttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGTCTTTGACAACTCATTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G020096_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g03820.3 (Oryza sativa), 3'ss of exon 8
gtatttacttgatagcccttcaggaaatacataattaatttcattacctgcagttactaaca-catttacccttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGTCTTTGACAACTCATTTGG
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gtgattgctttattgcttttaa--aagtacattgtt----ttgttgtatgaagttgccaacaacatcattcatgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGG
upper sequence: GRMZM2G020096_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os07g27790.1 (Oryza sativa), 3'ss of exon 8
gtatttacttgatagcccttcaggaaatacataattaatttcattacctgcagttactaacacatttacccttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGTCTTTGACAACTCATTTGG
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gtgattgctttattgcttttaa--aagtacattgtt----ttgttgtatgaagttgccaacatcatt--catgatctgcagCCATATTTGGACTGATACTGACAACAACCGCTCAGGGATGCTTCCTTTTGTGTTCGATGACTCATTTGGMapped 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|211306283|gb|FL001396.1|FL001396EST: AATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAG CCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGT
genomic: AATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAGgtatttactt ... ttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGT
EST:
gi|211306281|gb|FL001394.1|FL001394EST: AATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAG CCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGT
genomic: AATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAGgtatttactt ... ttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGT
EST:
gi|211306280|gb|FL001393.1|FL001393EST: AATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAG CCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGT
genomic: AATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAGgtatttactt ... ttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGT
EST:
gi|211304264|gb|FL001390.1|FL001390EST: AATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAG CCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGT
genomic: AATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAGgtatttactt ... ttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGT
EST:
gi|211306282|gb|FL001395.1|FL001395EST: AATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTTAGCCTAAGGAG CCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGT
genomic: AATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAGgtatttactt ... ttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGT
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:
133ATTGCAACTGCAATATTTGCCAATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAGgtatttactt ... ttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGTCTTTGACAACTCATTTGG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
313ATTGCAACTGCAATATTTGCCAATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAGgtatttactt ... ttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGTCTTTGACAACTCATTTGG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
618ATTGCAACTGCAATATTTGCCAATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAGgtatttactt ... ttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGTCTTTGACAACTCATTTGG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
28ATTGCAACTGCAATATTTGCCAATTCTCCCTTTAAAGAAGGAAAACCAAATGGATTTCTCAGCCTAAGGAGgtatttactt ... ttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGTCTTTGACAACTCATTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atacataattaatttcattacctgcagttactaacacatttacccttatctgcagCCATATCTGGACAGATACCGATAACAACCGTGCAGGGATGCTCCCTTTTGTCTTTGACAACTCATTTGG
tactaac putative branch site (score: 28)
tttaccctt putative PPT
taattaatttcatta TA-rich tract