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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtgtaagatttagagcccattaccacccctgtgtgccataacagatcattctttccttctgatttcacatcttatatttataatatgttttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG

Basic information

species Zea mays
transcript GRMZM5G850355_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G850355_T08 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g42320.1 (Oryza sativa), 3'ss of exon 7
----------------------------------------------------agtgtaagatttagagcccattaccacccctgtgtgccataacag-atcattctttccttctgatttcac-atcttatatttataatatgttttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG
                                                        | |||  || ||   |||      |  |  |  | |      |   || | |   |    ||  ||  |  |  |       |||||  |||||  ||||||||||| || ||||||||||||||||||||||| ||||| ||||||||| ||||||||||
gtacatagcataccactaatattgtattgtactacactctgttttcctcaatctgatcagaaataaagtggatttgtttacgaggatatcttctttccaaagttgtatgactgcacttgtactgttgttcaacctctttatgtcctcatttcagATACACAGAAGACATGGAGCTTGATGATGCCATCCATACTGCCATTTTGACTCTGAAAGAAGG

upper sequence: GRMZM5G850355_T08 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA08G17810.3 (Glycine max), 3'ss of exon 9
-agtgtaagatttagagcccattaccacccctgtgtgccataacagatcattctttccttctgatttcacatcttatatttataatatgttttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG
   |      ||| |||   |||   |      || |    |  || | |  | |   ||    | |||  |||    || |    ||  |    ||  || |||||||| ||||||||||||||||||||  ||||||| ||||| |||||| |||| |||||
actttctttctttggagataattgtgattatgttgagtttcattag-ttacacctcattttccttatcatttctatggttgacttgattgtccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACAGCAATATTGACTCTGAAGGAAGG

upper sequence: GRMZM5G850355_T08 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA03G16660.1 (Glycine max), 3'ss of exon 9
agtgtaagatttagagcccattaccacccctgtgtgccataacagatcattctttccttctgatttcacatct-tatatttataatatgttttca-ttgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG
  ||      ||| |   | ||        || ||  ||| |    |   || || | | |    |  ||| | |||  ||    ||  | | || ||  || |||||||| |||||||||||||||||| |  ||||||| ||||| |||||| |||| |||||
--tgattatattatatttctttgaatgatttgagttgcattagttttacctcatttcattttccctatcatttctatggttgacttaattgtccacttacagGTACACAGATGATATGGAGCTTGATGATTCAGTCCACACAGCAATATTGACTCTGAAGGAAGG

upper sequence: GRMZM5G850355_T08 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA03G16660.2 (Glycine max), 3'ss of exon 9
agtgtaagatttagagcccattaccacccctgtgtgccataacagatcattctttccttctgatttcacatct-tatatttataatatgttttca-ttgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG
          ||| |   | ||        || ||  ||| |    |   || || | | |    |  ||| | |||  ||    ||  | | || ||  || |||||||| |||||||||||||||||| |  ||||||| ||||| |||||| |||| |||||
----------ttatatttctttgaatgatttgagttgcattagttttacctcatttcattttccctatcatttctatggttgacttaattgtccacttacaggtacacagATGATATGGAGCTTGATGATTCAGTCCACACAGCAATATTGACTCTGAAGGAAGG

upper sequence: GRMZM5G850355_T08 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA15G41330.1 (Glycine max), 3'ss of exon 9
agtgtaagatttagagcccattac-cacccctgtgtgccataacagatcattctttccttctgatttcacatcttatatttataatatgttttcattgt--------agATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG
     |||||  |      ||||     ||||| |||   | | |  |||||  ||    || ||||  |   | || | |||  | ||  || |||||        || |||||||| ||||||||||||||||||||  ||||||| ||||| |||||| |||| |||||
-----aagat--aattgtgattatgtttccctgagtgatttgagat-tcatttgttatacctcattttccccatcatttctatggt-tgacttgattgtccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACAGCAATGTTGACTCTGAAGGAAGG

upper sequence: GRMZM5G850355_T08 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA01G25940.2 (Glycine max), 3'ss of exon 8
agtgtaagatttagagcccattaccacccctgtgtgccataacagatcattctttccttctgatttcacatct-tatatttataatatgttttca-ttgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG
  ||      | | |   | ||        || ||  ||| |    |  ||| || | | |    |  ||| | |||  ||    |   | | || ||  || |||||||| ||||||||||||||||||||  |||||||  |||| ||||||||||| |||||
--tgattatataatatttctttgagtgatttgagttgcattagttttacttcatttcattttccctatcatttctatggttgacttgattgtccacttacagGTACACAGATGATATGGAGCTTGATGATGCAGTCCACACATCAATATTGACTTTGAAGGAAGG

upper sequence: GRMZM5G850355_T08 (Zea mays), 3'ss of exon 8
lower sequence: AT1G79210.3 (Arabidopsis thaliana), 3'ss of exon 9
agtgtaagatttagagcccattaccacccctgtgtgccataacagatcattctttccttctgatttcacatcttatatttataatatgttttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG
             | |   || |    || | ||||        ||| | | | |  |  ||    ||  || |   || ||  ||   ||| ||   || |||||||| |||||||| |||||||||||||| ||||| ||||| ||||| ||||| |||||
-------------gtgataataatttaccatttgtggt------gatgagtttatgatcttggaagcatgtcat---ttcatcttagtctttgatc--agGTACACAGAAGATATGGAACTTGATGATGCCATTCACACGGCAATATTGACATTGAAGGAAGG

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|56382484|gb|CV985153.1|CV985153
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|32942863|gb|CF047682.1|CF047682
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|60354522|gb|DN221495.1|DN221495
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|32931156|gb|CF035968.1|CF035968
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|71331106|gb|DR802380.1|DR802380
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|5525504|gb|AI861397.1|AI861397
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|14242859|gb|BG840665.2|BG840665
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|32932932|gb|CF037744.1|CF037744
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|211246869|gb|FL472890.1|FL472890
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|32908068|gb|CF012881.1|CF012881
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTCGAGAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|6653876|gb|AW267281.1|AW267281
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|32931645|gb|CF036457.1|CF036457
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|14204267|gb|BG837944.1|BG837944
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|5566889|gb|AI881800.1|AI881800
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|5895580|gb|AW036826.1|AW036826
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|113702959|gb|EE680463.1|EE680463
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|5108080|gb|AI739793.1|AI739793
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|78021721|gb|DV490108.1|DV490108
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|71331110|gb|DR802381.1|DR802381
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|211302508|gb|FL360538.1|FL360538
EST:     GAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGG--ATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: GAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|26559204|gb|CA831439.1|CA831439
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|211253078|gb|FL452731.1|FL452731
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACMCAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|33093559|gb|CF053553.1|CF053553
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|32868632|gb|CF008314.1|CF008314
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|32865823|gb|CF005505.1|CF005505
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|32930042|gb|CF034854.1|CF034854
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|60359187|gb|DN226160.1|DN226160
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|32849719|gb|CD989400.1|CD989400
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|16918711|gb|BM073864.1|BM073864
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|87156656|gb|DY401445.1|DY401445
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|6031332|gb|AW076189.1|AW076189
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|6020496|gb|AW065424.1|AW065424
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|40337252|gb|CK371322.1|CK371322
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|67018206|gb|CO446955.1|CO446955
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|60341905|gb|DN208878.1|DN208878
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|14203539|gb|BG837216.1|BG837216
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|211227292|gb|FL365228.1|FL365228
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGGAGCTTGATGATGCCATCCACACTGCAATTTTGA
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGG-AGCTTGATGATGCCATCCACACTGCAATTTTGA
EST: gi|6020544|gb|AW065472.1|AW065472
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|14243343|gb|BG841010.2|BG841010
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|32908069|gb|CF012882.1|CF012882
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTCGAGAAGAG                         ATACACAGAGGATATGGAGCTTGATGATG
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATG
EST: gi|5762225|gb|AI967273.1|AI967273
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|60346286|gb|DN213259.1|DN213259
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|4572854|gb|AI586503.1|AI586503
EST:     AAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: AAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|5819357|gb|AI987563.1|AI987563
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|12967997|gb|BG264944.1|BG264944
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|211062081|gb|FL465317.1|FL465317
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|60355411|gb|DN222384.1|DN222384
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|22520740|gb|BU079551.1|BU079551
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCCACACTGCAATT
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCC-ACACTGCAATT
EST: gi|31355634|gb|CD439991.1|CD439991
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAACTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
EST: gi|211062082|gb|FL465318.1|FL465318
EST:     TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAG                         ATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC
genomic: TCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGAC

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: 528

GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 383

GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 497

GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 390

GTTGATCCCTCAGGATCATACTTCTCCTGGAAGGCATCAGCCATGGGAAAAAATGTGTCAAATGCAAAGACATTTCTTGAAAAGAGgtacataatc ... ttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcattctttccttctgatttcacatcttatatttataatatgttttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG
            ttctgat  putative branch site (score: 390)
                                           ttttcatt  putative PPT
                 atttcacatcttatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtgtaagatttagagcccattaccacccctgtgtgccataacagatcattctttccttctgatttcacatcttatatttataatatgttttcattgtagATACACAGAGGATATGGAGCTTGATGATGCCATCCACACTGCAATTTTGACTTTGAAAGAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG