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

...agcaaagtctgatttcattgtcttataccaatgtctcaagctatattgttatttattttatcattgctactttattctctaagtctacactatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTCTCAAGGGATAATGGACTTGAAATCGTTACTATAAACCCAGCGATGGTTA

Basic information

species Zea mays
transcript GRMZM2G179981_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179981_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g34480.2 (Oryza sativa), 3'ss of exon 3
----agcaaagtctgatttcattgtcttataccaatgtctcaagctatattgttatttattttatcattgctactttattctctaagtctacactatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTCTCAAGGGATAATGGACTTGAAATCGTTACTATAAACCCAGCGATGGTTA
       |||      |||     |  | |||   |    ||  | |  ||  | || |  |  ||     || |||  | |  | |   |  ||  ||  |||||||||||| || |||||||||| || ||||||||||||||||||||||| ||||  ||||||||| ||||||| |||||  | |||||||| ||||| |
tccttttaaatatcctttttgaatttctgtact--ttcaccatacaaagtttctgttaaggtattctaaaatatttttatttgaatgctcattctgctt--cagCAATGGTATGTTCTGTCCAAGACCCTAGCAGAGGAGGCTGCTTGGAAGTTTTCAAAAGATAATGGATTTGAAATAGTTACGGTGAACCCAGCAATGGTCA
















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|71428917|gb|DR809967.1|DR809967
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|71533539|gb|DR784298.1|DR784298
EST:     CAGTTGACTAGACATGGTTTTCTGATCCACAACTTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|67012392|gb|CO441141.1|CO441141
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|60356125|gb|DN223098.1|DN223098
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|71765987|gb|DR963924.1|DR963924
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|149026876|gb|EE046227.2|EE046227
EST:     GATCAACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: GATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|32839668|gb|CD979349.1|CD979349
EST:     AGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAA-TCGAG                         CAATGGTATATTTTGTCCAAGACGCT
genomic: AGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATC-AGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCT
EST: gi|33103333|gb|CF063293.1|CF063293
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCAGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|33103356|gb|CF063316.1|CF063316
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|33103049|gb|CF063009.1|CF063009
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCAGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|60337657|gb|DN204630.1|DN204630
EST:     CAGTTGACGAGACATGGTTTTATGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|211348064|gb|FL030221.1|FL030221
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|149026877|gb|EE046228.2|EE046228
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|211185449|gb|FL425704.1|FL425704
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGATACATATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAAGCTGCTTGGA-GTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|148958396|gb|EC904627.2|EC904627
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|71770068|gb|DR968005.1|DR968005
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|211348062|gb|FL030219.1|FL030219
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|211048009|gb|FL383290.1|FL383290
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|33094381|gb|CF054375.1|CF054375
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|26559681|gb|CA831916.1|CA831916
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|149100821|gb|EE186915.2|EE186915
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCCAGACGCTGGCAGAGGAGGC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGC
EST: gi|78544880|gb|DV622378.1|DV622378
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|211472020|gb|FL423399.1|FL423399
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|32839669|gb|CD979350.1|CD979350
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|76910650|gb|DV163965.1|DV163965
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|33103599|gb|CF063559.1|CF063559
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|32919122|gb|CF023934.1|CF023934
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|32849998|gb|CD989679.1|CD989679
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|148958397|gb|EC904628.2|EC904628
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|93016050|gb|EB641570.1|EB641570
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|33103096|gb|CF063056.1|CF063056
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|60348833|gb|DN215806.1|DN215806
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|6095419|gb|AW120086.1|AW120086
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|113701585|gb|EE679089.1|EE679089
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|211424380|gb|FL426745.1|FL426745
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAAGAAGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|32864881|gb|CF004563.1|CF004563
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|37419281|gb|CF647319.1|CF647319
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|60338608|gb|DN205581.1|DN205581
EST:     AGTTGACGAGACATGGTTTTCTGATCCACCAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: AGTTGACGAGACATGGTTTTCTGATCCA-CAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|50327451|gb|CO522577.1|CO522577
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|5895615|gb|AW036861.1|AW036861
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|32850159|gb|CD989840.1|CD989840
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|87157204|gb|DY401993.1|DY401993
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|19770177|gb|BQ034898.1|BQ034898
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|211348063|gb|FL030220.1|FL030220
EST:     TGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: TGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|211424392|gb|FL426757.1|FL426757
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|9731186|gb|BE509938.1|BE509938
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCT
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCT
EST: gi|6227063|gb|AW155767.1|AW155767
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|51592593|gb|CV071739.1|CV071739
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAGTCAG                         CAATGGTATATTTTGTCCAA
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAA
EST: gi|5525519|gb|AI861412.1|AI861412
EST:     CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAG                         CAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTC
EST: gi|211513777|gb|FL392212.1|FL392212
EST:     CAGTTGACGAGACATGGTTTTCTGATCCCCAAATTTGTGAAACAAATCAC                         CAATGGTATATTTTGTCCAAAACCCTGGCAGAGGAGGCCTGCTTGGAAGTC
genomic: CAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGC-TGCTTGGAAGTT

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), 48 (downstream exon)
Score: 252

ATCTATGGCTGCTGTAGCCTACAACAGGAGGCCAAGGACTCCTGAGGTCACAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTCTCAAGGGATAATGGACTTGAAATCGTTACTATAAACCCAGCGATGGTTA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 572

ATCTATGGCTGCTGTAGCCTACAACAGGAGGCCAAGGACTCCTGAGGTCACAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTCTCAAGGGATAATGGACTTGAAATCGTTACTATAAACCCAGCGATGGTTA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 718

ATCTATGGCTGCTGTAGCCTACAACAGGAGGCCAAGGACTCCTGAGGTCACAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTCTCAAGGGATAATGGACTTGAAATCGTTACTATAAACCCAGCGATGGTTA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 281

ATCTATGGCTGCTGTAGCCTACAACAGGAGGCCAAGGACTCCTGAGGTCACAGTTGACGAGACATGGTTTTCTGATCCACAAATTTGTGAAACAAATCAGgtattttttc ... tatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTCTCAAGGGATAATGGACTTGAAATCGTTACTATAAACCCAGCGATGGTTA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttatttattttatcattgctactttattctctaagtctacactatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTCTCAAGGGATAATGGACTTGAAATCGTTACTATAAACCCAGCGATGGTTA
     atttattttatcatt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agcaaagtctgatttcattgtcttataccaatgtctcaagctatattgttatttattttatcattgctactttattctctaagtctacactatttggcagCAATGGTATATTTTGTCCAAGACGCTGGCAGAGGAGGCTGCTTGGAAGTTCTCAAGGGATAATGGACTTGAAATCGTTACTATAAACCCAGCGATGGTTA

- - - - - - tttcatt