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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatatatgccctccatcatcgttctgtacgcgttgaggcttatatatatgcagctgagcagcgtctgttcgttcgttgctgtgcttgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCCAGAACCGGCTGAGGCTAAATAAGTGATGGCGTGGTTTCG

Basic information

species Zea mays
transcript GRMZM5G885392_T01
intron # 8
splice site 3'
intron type U2

Mapped 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|18178811|gb|BM380021.1|BM380021
EST:     ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAG                         TTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
genomic: ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
EST: gi|88748429|gb|DY532570.1|DY532570
EST:     ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAG                         TTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
genomic: ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
EST: gi|71760700|gb|DR958637.1|DR958637
EST:     ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAG                         TTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
genomic: ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
EST: gi|86468794|gb|DY235164.1|DY235164
EST:     ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAG                         TTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
genomic: ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
EST: gi|32924975|gb|CF029787.1|CF029787
EST:     ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAG                         TTGTGGCACTGAGTTGGAGT
genomic: ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGT
EST: gi|78074964|gb|DV503398.1|DV503398
EST:     ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAG                         TTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
genomic: ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
EST: gi|13381842|gb|BG458517.1|BG458517
EST:     ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAG                         TTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
genomic: ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
EST: gi|148942558|gb|EC887577.2|EC887577
EST:     ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAG                         TTGTGGCACTGAGTTGGAGTACGACTTTTCAACCCGATTGATCACACTCCC
genomic: ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
EST: gi|211475315|gb|FL222267.1|FL222267
EST:     ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAG                         TTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
genomic: ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
EST: gi|110538710|gb|EE042664.1|EE042664
EST:     ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAG                         TTGTGGCACTGAGTTGGAGTACGACTTTTCAACCCGATTGATCACACTCCC
genomic: ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
EST: gi|211475316|gb|FL222268.1|FL222268
EST:     ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAG                         TTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC
genomic: ATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCC

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 3 RNA-Seq libraries.


Block sizes: 24 (upstream exon), 36 (downstream exon)
Score: 9

GGTCCGTGTCCAAACTGCGGGAATGAAAACCTCTCCTTCTTCGGTACCATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCCAGAACCGGCTGAGGCTAAATAAGTGATGGCGTGGTTTCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 169

GGTCCGTGTCCAAACTGCGGGAATGAAAACCTCTCCTTCTTCGGTACCATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCCAGAACCGGCTGAGGCTAAATAAGTGATGGCGTGGTTTCG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 199

GGTCCGTGTCCAAACTGCGGGAATGAAAACCTCTCCTTCTTCGGTACCATACTGTCAGTGCCTAGCGGTGGCTCAAAAAACAGCGTGAAATGTGCAAGgtacatatat ... tgtgcatcagTTGTGGCACTGAGTTGGAGTACGACTCTTCAACCCGATTGATCACACTCCCAGAACCGGCTGAGGCTAAATAAGTGATGGCGTGGTTTCG