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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAGGTTGATGATGTTGTTACTTTTCCATCAGACTGTCAACCATGCAAAATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAGgtaatataatatatagtcagaaaatcaatgtcatatattaggttcttcactcaagtttattgcacaatacctgttacatgcattttctgacacatggtttatggtttacag

Basic information

species Zea mays
transcript GRMZM2G376074_T02
intron # 8
splice site 5'
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|211008051|gb|FL363351.1|FL363351
EST:     ATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAG                         AGCAGTAAAACTTGAGCAACGACACAAACATGAAAAGTTAATATCTGGGAA
genomic: ATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAGgtaatataat ... tggtttacagAGCAGTGAAACTTGAGCAACGATACAAACATGAAAAGTTAATATCTGGGAA
EST: gi|32931325|gb|CF036137.1|CF036137
EST:     ATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAG                         AGCAGTAAAACTTGAGCAACGACACAAACATGAAAAGTTAATATCTGGGAA
genomic: ATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAGgtaatataat ... tggtttacagAGCAGTGAAACTTGAGCAACGATACAAACATGAAAAGTTAATATCTGGGAA
EST: gi|50331242|gb|CO526368.1|CO526368
EST:     ATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAG                         AGCAGTGAAACTTGAGCAACGATACAAACATGAAAAGTTAATATCTGGGAA
genomic: ATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAGgtaatataat ... tggtttacagAGCAGTGAAACTTGAGCAACGATACAAACATGAAAAGTTAATATCTGGGAA
EST: gi|211061749|gb|FL343242.1|FL343242
EST:     ATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAG                         AGCAGTAAAACTTGAGCAACGACACAAACATGAAAAGTTAATATCTGGGAA
genomic: ATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAGgtaatataat ... tggtttacagAGCAGTGAAACTTGAGCAACGATACAAACATGAAAAGTTAATATCTGGGAA

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: 291

AGAAGGTTGATGATGTTGTTACTTTTCCATCAGACTGTCAACCATGCAAAATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAGgtaatataat ... tggtttacagAGCAGTGAAACTTGAGCAACGATACAAACATGAAAAGTTAATATCTGGGAAGAGCTTTGCACTTCGTCCTGGTGAAAAATATTATTTGGTTCCTTCATCT


Block sizes: 44 (upstream exon), 47 (downstream exon)
Score: 64

AGAAGGTTGATGATGTTGTTACTTTTCCATCAGACTGTCAACCATGCAAAATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAGgtaatataat ... tggtttacagAGCAGTGAAACTTGAGCAACGATACAAACATGAAAAGTTAATATCTGGGAAGAGCTTTGCACTTCGTCCTGGTGAAAAATATTATTTGGTTCCTTCATCT


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 77

AGAAGGTTGATGATGTTGTTACTTTTCCATCAGACTGTCAACCATGCAAAATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAGgtaatataat ... tggtttacagAGCAGTGAAACTTGAGCAACGATACAAACATGAAAAGTTAATATCTGGGAAGAGCTTTGCACTTCGTCCTGGTGAAAAATATTATTTGGTTCCTTCATCT


Block sizes: 47 (upstream exon), 47 (downstream exon)
Score: 150

AGAAGGTTGATGATGTTGTTACTTTTCCATCAGACTGTCAACCATGCAAAATCTGTAGTCAGGAATTGTCTGATGTTGCTTCTGTTGAGGGTAATCTTAGgtaatataat ... tggtttacagAGCAGTGAAACTTGAGCAACGATACAAACATGAAAAGTTAATATCTGGGAAGAGCTTTGCACTTCGTCCTGGTGAAAAATATTATTTGGTTCCTTCATCT