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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCACAGGTACTGGTATGTCTGGTCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagcatatgcttcattttgtcttgttattgtacatatatcacataagcattttcctgtgttttttgcatgtaattttcctgcaattaattggttaatgtaaatttgtacttttacag

Basic information

species Zea mays
transcript GRMZM2G088974_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G088974_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os12g08270.1 (Oryza sativa), 5'ss of exon 3
GATCACAGGTACTGGTATGTCTGGTCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagcatatgctt--cattttgtcttgttattgtacatatatcacataagcattttcctgtgttttttgcatgtaattttcctgcaattaattggttaatgtaaatttgtacttttacag
||||||||||| ||||| || ||||||||||||  ||||| |||||| |||| || || ||  | |||||||||||||    || ||  |   ||||| | ||| ||  ||| ||  ||||||| |   |     || | |   || | |||    ||                                        
GATCACAGGTATTGGTAAGTGTGGTCCTGAAGATTGAATTACCTTCTAACTCCTTTTCCATGGTGGCTGAAGAGgtaatttacaaatagtatacatttcgccttatt--tgttcagttatcacacagagaagcatctttttccattacttgttgacttataaag----------------------------------
















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|211415727|gb|FL269515.1|FL269515
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413169|gb|FL269492.1|FL269492
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTG
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTG
EST: gi|211415719|gb|FL269507.1|FL269507
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|71315047|gb|DR794148.1|DR794148
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|149080861|gb|EE169941.2|EE169941
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|76013309|gb|DT940479.1|DT940479
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413178|gb|FL269501.1|FL269501
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211415724|gb|FL269512.1|FL269512
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAAAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|6564144|gb|AW231766.1|AW231766
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|24961621|gb|CA483621.1|CA483621
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|86467595|gb|DY233965.1|DY233965
EST:     TCCTGAAAAAGGAATTGCCTTCTCACTCTTTCTCACTCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAAAAATTATAAAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413170|gb|FL269493.1|FL269493
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413176|gb|FL269499.1|FL269499
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTRTAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|101382115|gb|EB813113.1|EB813113
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCACAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|71766943|gb|DR964880.1|DR964880
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|93282631|gb|EB674895.1|EB674895
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413171|gb|FL269494.1|FL269494
EST:     CCTGAAGAAGGSAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: CCTGAAGAAGG-AATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413173|gb|FL269496.1|FL269496
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAAAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|67018692|gb|CO447441.1|CO447441
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413174|gb|FL269497.1|FL269497
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413179|gb|FL269502.1|FL269502
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211415721|gb|FL269509.1|FL269509
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211415726|gb|FL269514.1|FL269514
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211415722|gb|FL269510.1|FL269510
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413168|gb|FL269491.1|FL269491
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413172|gb|FL269495.1|FL269495
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCC
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCC
EST: gi|211413177|gb|FL269500.1|FL269500
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211410631|gb|FL269489.1|FL269489
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|91878967|gb|EB408924.1|EB408924
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCCATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCCAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413180|gb|FL269503.1|FL269503
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|89754588|gb|DY685315.1|DY685315
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAGGAG                         GGATTCAAAAGACTTGAGAG
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagG-ATTCAAAAGACTTGAGAG
EST: gi|211413181|gb|FL269504.1|FL269504
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211415725|gb|FL269513.1|FL269513
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211410632|gb|FL269490.1|FL269490
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|71439240|gb|DR820290.1|DR820290
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|76937581|gb|DV175190.1|DV175190
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|101401653|gb|EB822491.1|EB822491
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211415718|gb|FL269506.1|FL269506
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211415720|gb|FL269508.1|FL269508
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|32929559|gb|CF034371.1|CF034371
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211415728|gb|FL269516.1|FL269516
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATT
EST: gi|211413175|gb|FL269498.1|FL269498
EST:     TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAG                         GATCTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACAT
genomic: TCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGAT-TCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACAT

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: 47 (upstream exon), 48 (downstream exon)
Score: 119

GATCACAGGTACTGGTATGTCTGGTCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATTACCACCCTCATTAATGAAACCATCGTAAATGATGGTTCATACAACATGT


Block sizes: 48 (upstream exon), 44 (downstream exon)
Score: 74

GATCACAGGTACTGGTATGTCTGGTCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATTACCACCCTCATTAATGAAACCATCGTAAATGATGGTTCATACAACATGT


Block sizes: 49 (upstream exon), 43 (downstream exon)
Score: 103

GATCACAGGTACTGGTATGTCTGGTCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATTACCACCCTCATTAATGAAACCATCGTAAATGATGGTTCATACAACATGT


Block sizes: 48 (upstream exon), 42 (downstream exon)
Score: 93

GATCACAGGTACTGGTATGTCTGGTCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagca ... acttttacagGATTCAAAAGACTTGAGAGAAGATGGTGCCCAAGAAATTATAGAACACATTACCACCCTCATTAATGAAACCATCGTAAATGATGGTTCATACAACATGT


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATCACAGGTACTGGTATGTCTGGTCCTGAAGAAGGAATTGCCTTCTCACTCTTTCTCAATCATAGCTGAAGAGgtaaccagcatatgcttcattttgtcttgttattgtacatatatcacataagcattttcctgtgttttttgcatgtaattttcctgcaattaattggttaatgtaaatttgtacttttacag

- - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA