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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaaaaatatttgcttcttcatgatatagatgaatagaaataatatctccttcactacctgatgtttgtgtagagctttaggaggtatgtcattgagcatttgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACAGAGAAGGCAGGGAAGGTGTCGAAGCTCACCAAGGGCGAGATCCTCATGC

Basic information

species Zea mays
transcript GRMZM2G117900_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G117900_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os12g41400.1 (Oryza sativa), 3'ss of exon 8
gtttgtaaaaatatttgcttcttcatgatatagatgaatagaaataatatctccttcactacctgatgtttgtgtagagctttaggaggtatgtcattgagcatttgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACAGAGAAGGCAGGGAAGGTGTCGAAGCTCACCAAGGGCGAGATCCTCATGC
|||||| ||  | || | | | ||| ||| |||     |   ||||| |   | |||| | | | |      | | ||  || | |                        |||||||||| |||||||| || ||||||||||||||||||||||| |||||||| |||||||| |||||||| || |||||||||||||| || ||||||||||
gtttgtcaac-tcttcgttgcatcaagatttag-----tgagaataaaa---cattcattgcttaa-----atctggactttcatgca----------------------tgcagATCAACTTCTTCCTTCTTCGGAGGCTGTTGGGTGTGAGGACAAAAGGTACTGAGAAGGCTGGGAAGGTCTCCAAGCTCACCAAGGGTGAAATCCTCATGC

upper sequence: GRMZM2G117900_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os12g07740.1 (Oryza sativa), 3'ss of exon 8
gtttgtaaaaatatttgcttcttcatgatatagatgaatagaaataatatctccttcactacctgatgtttgtgta-gagctttaggaggtatgtcattgagcatttgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACAGAGAAGGCAGGGAAGGTGTCGAAGCTCACCAAGGGCGAGATCCTCATGC
                                      | |  ||||    |   |  || |  | | || ||| | ||   | |  |  ||  ||  ||| | |||      |||||||| |||||||| || |||||||| || ||||||||||| ||||| ||||||||||| |||||||| || |||||||||||||| || ||||||||||
------------------------------------gtttgccataactcatttgtttcttcagggttttagtgaacgaatgtcattacttacatc--tgaaccttt--cacacagATCAACTTCTTCCTTCTTCGGAGGCTATTAGGTGTGAGGACAAAAGGCACAGAGAAGGCTGGGAAGGTCTCCAAGCTCACCAAGGGTGAAATCCTCATGC
















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|32830609|gb|CD970287.1|CD970287
EST:     AGGTTCTTGGTGAAGTAGGTTCACTACCTGATGTTTACGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
EST: gi|211535287|gb|FL466476.1|FL466476
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTTAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32840734|gb|CD980415.1|CD980415
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
EST: gi|166545480|gb|EG243737.1|EG243737
EST:     GTTGGTTCTACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: GTTGGTTC-ACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|7135408|gb|AW498071.1|AW498071
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32942799|gb|CF047618.1|CF047618
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTA
EST: gi|32906814|gb|CF011627.1|CF011627
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32930267|gb|CF035079.1|CF035079
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
EST: gi|5456269|gb|AI833959.1|AI833959
EST:     TGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: TGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32840454|gb|CD980135.1|CD980135
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
EST: gi|32932738|gb|CF037550.1|CF037550
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
EST: gi|32840948|gb|CD980629.1|CD980629
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
EST: gi|7135034|gb|AW497883.1|AW497883
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32940834|gb|CF045653.1|CF045653
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTA
EST: gi|60397748|gb|DN230564.1|DN230564
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|4628201|gb|AI619075.1|AI619075
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|50336204|gb|CO531330.1|CO531330
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|33093623|gb|CF053617.1|CF053617
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTA
EST: gi|71763435|gb|DR961372.1|DR961372
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32930702|gb|CF035514.1|CF035514
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32827545|gb|CD967223.1|CD967223
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32840754|gb|CD980435.1|CD980435
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
EST: gi|32934531|gb|CF039343.1|CF039343
EST:     AGGTTCTTGGTGAAGTTGGCTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
EST: gi|32928236|gb|CF033048.1|CF033048
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTA
EST: gi|50336203|gb|CO531329.1|CO531329
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|37400883|gb|CF637802.1|CF637802
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32841015|gb|CD980696.1|CD980696
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
EST: gi|60338464|gb|DN205437.1|DN205437
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32945454|gb|CF050273.1|CF050273
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
EST: gi|32840804|gb|CD980485.1|CD980485
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
EST: gi|32841334|gb|CD981015.1|CD981015
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
EST: gi|33095600|gb|CF055594.1|CF055594
EST:     GGTTCTAGAGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
genomic: GGTTCTTG-GTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
EST: gi|33094211|gb|CF054205.1|CF054205
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
EST: gi|32932301|gb|CF037113.1|CF037113
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
EST: gi|32941656|gb|CF046475.1|CF046475
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
EST: gi|32932910|gb|CF037722.1|CF037722
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32928487|gb|CF033299.1|CF033299
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTA
EST: gi|32936251|gb|CF041063.1|CF041063
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
EST: gi|83278881|gb|DV942889.1|DV942889
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACGTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACA
EST: gi|32943977|gb|CF048796.1|CF048796
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTAC
EST: gi|33093513|gb|CF053507.1|CF053507
EST:     AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAG                         ATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT
genomic: AGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGT

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), 49 (downstream exon)
Score: 458

GGGAACAACCATGGACCCAACTCTAACGCGTGCTGATAGGCTGGTTGGCCAGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACAGAGAAGGCAGGGAAGGTGTCGAAGCTCACCAAGGGCGAGATCCTCATGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 312

GGGAACAACCATGGACCCAACTCTAACGCGTGCTGATAGGCTGGTTGGCCAGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACAGAGAAGGCAGGGAAGGTGTCGAAGCTCACCAAGGGCGAGATCCTCATGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 381

GGGAACAACCATGGACCCAACTCTAACGCGTGCTGATAGGCTGGTTGGCCAGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACAGAGAAGGCAGGGAAGGTGTCGAAGCTCACCAAGGGCGAGATCCTCATGC


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 202

GGGAACAACCATGGACCCAACTCTAACGCGTGCTGATAGGCTGGTTGGCCAGGTTCTTGGTGAAGTTGGTTCACTACCTGATGTTTATGTAGAGCTTGAGgtttgtaaaa ... tgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACAGAGAAGGCAGGGAAGGTGTCGAAGCTCACCAAGGGCGAGATCCTCATGC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctgatgtttgtgtagagctttaggaggtatgtcattgagcatttgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACAGAGAAGGCAGGGAAGGTGTCGAAGCTCACCAAGGGCGAGATCCTCATGC
 acctgat  putative branch site (score: 202)
                                           tttgcttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtaaaaatatttgcttcttcatgatatagatgaatagaaataatatctccttcactacctgatgtttgtgtagagctttaggaggtatgtcattgagcatttgctttgcagATCAATTTCTTCCTACTCCGGAGGCTGTTGGGTGTGAGGACGAAAGGTACAGAGAAGGCAGGGAAGGTGTCGAAGCTCACCAAGGGCGAGATCCTCATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC