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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtgttctgatgcactattcctaagatttatgcagagagaaccatgtgcatattatcgaccaacctacagtggatcttacacaatcttttttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG

Basic information

species Zea mays
transcript GRMZM2G104632_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 3'ss of exon 11
gtgtgttctgatgcact-attcctaagatttatgcagagagaaccatgtgcatattatcgaccaacctacagtggatct-tacacaatcttttttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG
   ||   | |||||||  | ||        || | | ||    | |||   ||  || |   | | |  |   ||| |   || || || | | ||| |||| | ||||||||||||||||| ||||||||||| || |||||||| |||||||| ||||||||||| || ||||||||| ||||
-actgcggtcatgcacttgtaccgtctgaagattctgtgatgtgcctgtatgtaacattgtgaatcttttatcagatttactcataagctgtgtgttt-cagGGCAGCATCAGAGGGTGCACTGAAAGGTATTCTAGGTTACACAGATGAGGATGTGGTTTCCAATGACTTCGTTGGTGATGCAAG

upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA16G09020.1 (Glycine max), 3'ss of exon 11
gtgtgttctgatgcactattcctaagatttatgcagagagaaccatgtgcatattatcgaccaacctacagtggatcttacacaatctttttttt--------ttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG
|| |||        | |  |  |    ||| |||        |  ||     ||| |     |||||   |      ||  |  |  ||  |  |        |  |||   || ||||||||  |||| ||||| || ||||| |||||||||||||||||||| || ||||| |||||||||||||||||
gtatgtct------attgctttttgtttttttgctccaccctcattgctgtgattgttctgtaaccttttgcttgatttctatgactttgctactgaaaaatatgaagGTATGCCTCAGAGGGACCACTGAAAGGAATCCTTGGGTACACAGACGAGGATGTTGTCTCTAATGACTTTGTTGGTGATTCAAG

upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA03G22790.1 (Glycine max), 3'ss of exon 11
gtgtgttctgatgcactattcctaagatttatgcagagagaaccatgtgcatattatcgaccaacctacagtggatcttacacaatctttttttt--------ttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG
|| ||| ||  |||  | ||  |    |||  |     |      ||||  | || |  || |||||   |      ||  |  |  ||  |  |        |  |||   || ||||||||  |||| |||||||| ||||| |||||||||||||||||||| || ||||| |||||||||||||||||
gtatgt-ctattgcgtttttttt----ttttggtctccactctgctgtgattgttctgtactaaccttttgcttgatttctatgactttgctactgaaaaatatgaagGTATGCCTCAGAGGGACCACTGAAAGGTATCCTTGGGTACACAGACGAGGATGTTGTCTCTAATGACTTTGTTGGTGATTCAAG

upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 11
lower sequence: AT1G79530.1 (Arabidopsis thaliana), 3'ss of exon 11
--gtgtgttctgatgcactattcctaagatttatgcagaga--gaaccatgtgcatattatcgaccaacctacagtggatcttacacaatctttt------ttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG
   ||  | || |     |||| |        ||   |  |  ||| |||   | | |||  |   |||    | |  | ||  ||   | |  |       | |  ||||   || ||||| ||  | || ||||| ||||| || |||||||| || ||||| || ||||||||||| || |||||||||||
gtatgcttcctaaaattttattgcccgaccagatatcgtcatcgaaacattatcgt-ttaatgtagaactcttaata-acctctcatggtttaatgtaaacctctaacagGCATGCCTCAGAAGGACCTCTTAAAGGCATTCTCGGGTACACAGATGAAGATGTCGTCTCCAATGATTTCGTCGGTGATTCAAG

upper sequence: GRMZM2G104632_T01 (Zea mays), 3'ss of exon 11
lower sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 11
gtgtgttctgatgcactattcctaag-----atttatgcagagaga-accatgtgca--tattatcgaccaacctacagtggatcttacacaatcttttttttttca------gGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG
|| |  |||    | || |  ||        || |||  |   |   | ||||  ||  ||| ||  | |     | | |  |  |  |    |||||   ||| ||      ||   || ||||||||  || | || ||||||||||| ||||| || ||||||||||| |||||||||||||||||||| |||||
gtatactctctctctctctctctctctctctatctatctatctatctatcatgcccaagtatgatttatcccaaaatattaaaattatctttctctttgaatttccaactaaagGTATGCCTCAGAGGGGCCATTGAAGGGTATTCTTGGATACACGGATGAGGATGTTGTCTCCAATGATTTTGTTGGTGACTCAAG

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|211318612|gb|FL124689.1|FL124689
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAATCAGCCATCAT                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTNCACANACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|31354565|gb|CD438922.1|CD438922
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|60345701|gb|DN212674.1|DN212674
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTTTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|60397796|gb|DN230612.1|DN230612
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|67023119|gb|CO451868.1|CO451868
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|33098323|gb|CF058283.1|CF058283
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|91869744|gb|EB400518.1|EB400518
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTTTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|211318619|gb|FL124696.1|FL124696
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|113856264|gb|DW979435.1|DW979435
EST:     AAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: AAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|31352951|gb|CD437308.1|CD437308
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|67017162|gb|CO445911.1|CO445911
EST:     GCCGGATTGAGAAAAGCGCCTCCTATGGATGATGTGAA-GCAGCCATCAA                         GACCGCATCAGAGGGTGCACNTCAA-GGTATTCTTGGCT-CACAGACGAGG
genomic: GCCGGATTGAGAAAAGCGCCTCCTATG-ATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCAC-TCAAAGGTATTCTTGGCTACACAGACGAGG
EST: gi|71449916|gb|DR830966.1|DR830966
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTTTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|78543682|gb|DV621180.1|DV621180
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|16925198|gb|BM078266.1|BM078266
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|211011831|gb|FL066257.1|FL066257
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGATGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|6526690|gb|AW215981.1|AW215981
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|149048877|gb|EE048377.2|EE048377
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTTTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|24769367|gb|CA404496.1|CA404496
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAG
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAG
EST: gi|21809652|gb|BQ667970.1|BQ667970
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|37389585|gb|CF632014.1|CF632014
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|211340828|gb|FL479593.1|FL479593
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|110201672|gb|EC883569.1|EC883569
EST:     TCCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTTTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|32945687|gb|CF050506.1|CF050506
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|60347428|gb|DN214401.1|DN214401
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|6865068|gb|AW360418.1|AW360418
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|32857247|gb|CD996928.1|CD996928
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATATGAAAGCAGCCATCAA                         GACGACATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|16927361|gb|BM080430.1|BM080430
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|71449917|gb|DR830967.1|DR830967
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|211391098|gb|FL437304.1|FL437304
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|60355829|gb|DN222802.1|DN222802
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|113702479|gb|EE679983.1|EE679983
EST:     GTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: GTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|21331210|gb|BQ486591.1|BQ486591
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCCCTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|84977555|gb|DW475977.1|DW475977
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|71320203|gb|DR796854.1|DR796854
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|211318615|gb|FL124692.1|FL124692
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAGAGGTATTCTTGGCTACACAGACGAGGG
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGG-
EST: gi|211111379|gb|FK984525.1|FK984525
EST:     AAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: AAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|113703938|gb|EE681442.1|EE681442
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
EST: gi|60396993|gb|DN229812.1|DN229812
EST:     TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAA                         GACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA
genomic: TGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGA

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: 395

GTATGGCCTTCCGAGTTCCAACACCAAATGTCTCTGTTGTGGATTTGACATGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 261

GTATGGCCTTCCGAGTTCCAACACCAAATGTCTCTGTTGTGGATTTGACATGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 255

GTATGGCCTTCCGAGTTCCAACACCAAATGTCTCTGTTGTGGATTTGACATGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 418

GTATGGCCTTCCGAGTTCCAACACCAAATGTCTCTGTTGTGGATTTGACATGCCGGATTGAGAAAAGCGCCTCCTATGATGATGTGAAAGCAGCCATCAAgtatgtagaa ... tttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgcatattatcgaccaacctacagtggatcttacacaatcttttttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG
                             atcttac  putative branch site (score: 418)
                                     caatcttttttttttc  CT-rich tract
                                    acaatctttttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgttctgatgcactattcctaagatttatgcagagagaaccatgtgcatattatcgaccaacctacagtggatcttacacaatcttttttttttcagGACGGCATCAGAGGGTGCACTCAAAGGTATTCTTGGCTACACAGACGAGGATGTTGTTTCCAATGATTTTGTTGGTGATTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - -ctgatgc
- - - - - - - - - - - - - - ttatgca
- - - - - - - - - - - - - - - - - - - - - - - gtgcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acctaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtggatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tacacaa