Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGCTCTGCTTGCCGCCGACGGGGAGCTTCCTGACGGGATTGGTCGGCGTGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtgatctcctttcgattctttgtttggggctaaaattaggtcgtcagggttttttctttcactagcgaatctgaacatggcacttcgaacaggg...

Basic information

species Zea mays
transcript GRMZM5G844096_T01
intron # 1
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|50334172|gb|CO529298.1|CO529298
EST:     TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAG                         GGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
genomic: TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
EST: gi|71449424|gb|DR830474.1|DR830474
EST:     TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAG                         GGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
genomic: TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
EST: gi|211248592|gb|FL451515.1|FL451515
EST:     GCCCCGTGTTCTGTTTCTTGGACCGGCCAG                         GGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
genomic: GCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
EST: gi|71330833|gb|DR802216.1|DR802216
EST:     TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAG                         GGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
genomic: TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
EST: gi|71325243|gb|DR799312.1|DR799312
EST:     TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAG                         GGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
genomic: TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
EST: gi|78121201|gb|DV539585.1|DV539585
EST:     TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAG                         GGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
genomic: TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
EST: gi|37423115|gb|CF649283.1|CF649283
EST:     TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAG                         GGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
genomic: TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
EST: gi|71326797|gb|DR800065.1|DR800065
EST:     TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAG                         GGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA
genomic: TGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGA

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: 43 (upstream exon), 49 (downstream exon)
Score: 45

CATGCTCTGCTTGCCGCCGACGGGGAGCTTCCTGACGGGATTGGTCGGCGTGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGATCAGGGAAAGCTTGAAAACATTTCCACAGCCACCTAATAGGACTAATTT


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 62

CATGCTCTGCTTGCCGCCGACGGGGAGCTTCCTGACGGGATTGGTCGGCGTGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGATCAGGGAAAGCTTGAAAACATTTCCACAGCCACCTAATAGGACTAATTT


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 59

CATGCTCTGCTTGCCGCCGACGGGGAGCTTCCTGACGGGATTGGTCGGCGTGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGATCAGGGAAAGCTTGAAAACATTTCCACAGCCACCTAATAGGACTAATTT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 64

CATGCTCTGCTTGCCGCCGACGGGGAGCTTCCTGACGGGATTGGTCGGCGTGAGTGCCCCGGATTCGACCGCCCCGTGTTCTGCTTCTTGGACCGGCCAGgtaactgtga ... aactctgcagGGTTCTATTTCATTCCTGGTGCTTTATCAACTGAGGAACAATGCTGTTGGATCAGGGAAAGCTTGAAAACATTTCCACAGCCACCTAATAGGACTAATTT