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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcaaacccctccgtccctcctttctatcctccgaccagatctcgcgatcctcgcctcaaactactatctctgacccgagtttccgtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGCGGGGCTGAAGGCGGACGCGCGCGTGCTCATCAACCGCGCGCGGGTCGAG

Basic information

species Zea mays
transcript GRMZM2G042604_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G042604_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os09g36710.1 (Oryza sativa), 3'ss of exon 1
gtagcaaacccctccgtccctcctttctatcctccgaccagatctcgcgatcctcgcctcaaactactatctctgacccgagtttccgtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGCGGGGCTGAAGGCGGACGCGCGCGTGCTCATCAACCGCGCGCGGGTCGAG
||| | | | |||||   |  ||| |||  ||    |||    | |      |||  |||            | |    | | |||  |   |  ||||| ||||||||||||||  |||| ||||| ||||| || ||||||||||||||||| ||||||||||| ||||||||||||||||||||||||||||||
gtacccatcacctcctcgcgacctctctccccatacacc----cccatagatctcatctcg-----------ccggtgggggattcgattcgc--agGTCGGTGCGCAAGATCGCTAGCCTGGACACCCACATCGCGCTGGCGTGCGCGGGGCTCAAGGCGGACGCCCGCGTGCTCATCAACCGCGCGCGGGTCGAG

upper sequence: GRMZM2G042604_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA16G23580.1 (Glycine max), 3'ss of exon 1
-gtagcaaacccctccgtccctcctttctatcctccgaccagatctcgcgat------cctcgcctcaaactactatctctgacccgagtttccgtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGCGGGGCTGAAGGCGGACGCGCGCGTGCTCATCAACCGCGCGCGGGTCGAG
  || | ||  |   |  |   | |||  |  |   ||  | |  |  | |       | |||  |||||   | | | ||||       |  ||| | |  ||||| ||| | ||||| | |   || |||   ||||| || ||||| ||||||||||||||||| ||||| ||||||||||| ||| | || || || |||
gctaacgaatactaacaactaacatttgcaatcaaagaagaaaaataacaaaaaacgacgtcgtttcaaat--cgaaccctgattttg--tgtcgttttcgcagGTCGGTGAGGAAGATAGTGAATCTGGACGACCACATTGCGCTGGCCTGCGCGGGGCTGAAGGCCGACGCACGCGTGCTCATAAACAGGGCACGTGTGGAG

upper sequence: GRMZM2G042604_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA02G05190.1 (Glycine max), 3'ss of exon 1
----gtagcaaacccctccgtccctcctttc-tatcctccgaccagatctcgcgatcctcgcctcaaactactatctctgacccgagtttccgtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGCGGGGCTGAAGGCGGACGCGCGCGTGCTCATCAACCGCGCGCGGGTCGAG
      | |  |   ||| | |  ||| ||  ||       |||| |         | |||  ||||| ||  | | ||||   |   |  ||| | |  ||||| ||| | ||||| | |   || ||||  ||||| || ||||| ||||||||||||||||| ||||| || |||||||| ||| | || || || |||
caactcaccttatatctctgccgttcccttaataggtgtaaaccaaaaaaaaacgacgtcgtttcaaatta--aacactgatttggtgtgtcgttttcgcagGTCGGTGAGGAAGATTGTGAATCTGGACAACCACATTGCGCTGGCATGCGCGGGGCTGAAGGCCGACGCACGTGTGCTCATAAACAGGGCACGTGTGGAG

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|211219951|gb|FL188163.1|FL188163
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211039958|gb|FL188148.1|FL188148
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|101394882|gb|EB819375.1|EB819375
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211039962|gb|FL188152.1|FL188152
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|89755919|gb|DY686155.1|DY686155
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|74234850|gb|DT642764.1|DT642764
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|149075741|gb|EE164290.2|EE164290
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|32863984|gb|CF003666.1|CF003666
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211219959|gb|FL188171.1|FL188171
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|78084521|gb|DV512914.1|DV512914
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211219945|gb|FL188157.1|FL188157
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|149041329|gb|EE046966.2|EE046966
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|149004904|gb|EE039415.2|EE039415
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|28931367|gb|CB334728.1|CB334728
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211039956|gb|FL188146.1|FL188146
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGGCGTGCG
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGG-CGTGCG
EST: gi|76019011|gb|DT946181.1|DT946181
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|88758103|gb|DY542244.1|DY542244
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211219956|gb|FL188168.1|FL188168
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211039966|gb|FL188156.1|FL188156
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|101387811|gb|EB815920.1|EB815920
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211037507|gb|FL188137.1|FL188137
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211219947|gb|FL188159.1|FL188159
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|14203040|gb|BG836717.1|BG836717
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGABACTMACATAGTTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211222020|gb|FL188176.1|FL188176
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTG
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTG
EST: gi|78089239|gb|DV517613.1|DV517613
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211037508|gb|FL188138.1|FL188138
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211222018|gb|FL188174.1|FL188174
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|22489618|gb|BU049541.1|BU049541
EST:     CCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: CCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|31612385|gb|CD569007.1|CD569007
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|74240614|gb|DT648528.1|DT648528
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|87153825|gb|DY398614.1|DY398614
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|76280462|gb|DV020030.1|DV020030
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|8368683|gb|BE051628.1|BE051628
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|18384283|gb|BM417482.1|BM417482
EST:     GTCGTCCTCGGCGTCGAGAAGAATTTCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|93284340|gb|EB676604.1|EB676604
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|78112175|gb|DV530571.1|DV530571
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|22473077|gb|BU037557.1|BU037557
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211039963|gb|FL188153.1|FL188153
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|71426416|gb|DR807466.1|DR807466
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|37422471|gb|CF648946.1|CF648946
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211039954|gb|FL188144.1|FL188144
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTA
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTA
EST: gi|211039961|gb|FL188151.1|FL188151
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|78090841|gb|DV519215.1|DV519215
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|78112174|gb|DV530570.1|DV530570
EST:     CCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: CCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211219948|gb|FL188160.1|FL188160
EST:     GTCGTCCTCGGCGTCGAGAAGA-GTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTTAGACACTCACATAGCTCTGGCGTGCG
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCT-AGACACTCACATAGCTCTGGCGTGCG
EST: gi|31910235|gb|CD651322.1|CD651322
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|22521102|gb|BU079913.1|BU079913
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|14206774|gb|BG840452.1|BG840452
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|5566965|gb|AI881876.1|AI881876
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211037511|gb|FL188141.1|FL188141
EST:     GTCGTCCTCGGCGTCGAGAAGAAKTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTKCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|18384407|gb|BM417606.1|BM417606
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|87153436|gb|DY398225.1|DY398225
EST:     GTAGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCTTAGACACTCACATAGCTATGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|5268707|gb|AI770671.1|AI770671
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|18384284|gb|BM417483.1|BM417483
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|148938801|gb|EC883142.2|EC883142
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|71439339|gb|DR820389.1|DR820389
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGC
EST: gi|211039965|gb|FL188155.1|FL188155
EST:     GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAG                         GTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGC
genomic: GTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGC

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: 324

AGGCCGTCCGCAAGGGCAACGCCGCCGTGGGCGTCCGCGGCACGGACACCGTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGCGGGGCTGAAGGCGGACGCGCGCGTGCTCATCAACCGCGCGCGGGTCGAG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 213

AGGCCGTCCGCAAGGGCAACGCCGCCGTGGGCGTCCGCGGCACGGACACCGTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGCGGGGCTGAAGGCGGACGCGCGCGTGCTCATCAACCGCGCGCGGGTCGAG


Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 195

AGGCCGTCCGCAAGGGCAACGCCGCCGTGGGCGTCCGCGGCACGGACACCGTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGCGGGGCTGAAGGCGGACGCGCGCGTGCTCATCAACCGCGCGCGGGTCGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 166

AGGCCGTCCGCAAGGGCAACGCCGCCGTGGGCGTCCGCGGCACGGACACCGTCGTCCTCGGCGTCGAGAAGAAGTCCACACCCAAGCTCCAGGACTCCAGgtagcaaacc ... gtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGCGGGGCTGAAGGCGGACGCGCGCGTGCTCATCAACCGCGCGCGGGTCGAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcgcgatcctcgcctcaaactactatctctgacccgagtttccgtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGCGGGGCTGAAGGCGGACGCGCGCGTGCTCATCAACCGCGCGCGGGTCGAG
                            ctctgac  putative branch site (score: 166)
                                        tttccgtctccct  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagcaaacccctccgtccctcctttctatcctccgaccagatctcgcgatcctcgcctcaaactactatctctgacccgagtttccgtctccctagGTCCGTGCGCAAGATCGCGTGCCTAGACACTCACATAGCTCTGGCGTGCGCGGGGCTGAAGGCGGACGCGCGCGTGCTCATCAACCGCGCGCGGGTCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG