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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtttttttcctcgtaacagctctcaatcagtaactcagggttgattcatgcatgcactaactatgttggtccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG

Basic information

species Zea mays
transcript GRMZM2G074687_T01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G074687_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os07g14270.3 (Oryza sativa), 3'ss of exon 10
gtgtgtttttttcctcgtaacagctctcaatcagtaact-cagggttgattcatgcatgcactaactatgttggtccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
|| |||  || | | | || |   |  |    | ||  | |    | ||  ||  ||| | |||||  |  ||   ||| | |||| |||||| ||||||| || ||||| ||||||||||||||||| |||
gtatgtcgttcttcacctagcttttaccgtgtaatagtttcgttatcgaccca-acattctctaacattagtgaatcttgt-agGCTGAGAAGGCTGCTTTTGACGAGGCAGAGAAAAAGAAGGAAGAGGAG

upper sequence: GRMZM2G074687_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os07g14270.1 (Oryza sativa), 3'ss of exon 10
gtgtgtttttttcctcgtaacagctctcaatcagtaactcagg-gttgattcatgcatgcactaactatgttggtccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG----------------------------------------------------
|| |||  || | | | || |   |  |    | ||  |  |   | ||  ||  ||| | |||||  |  ||   ||| | |||| |||||| ||||||| || ||||| ||||||||||||||||| |||                                                    
gtatgtcgttcttcacctagcttttaccgtgtaatagtttcgttatcgaccca-acattctctaacattagtgaatcttgt-agGCTGAGAAGGCTGCTTTTGACGAGGCAGAGAAAAAGAAGGAAGAGGAGGTAAATTCCTTCACCTTACAATGTTCTAATATGAGGATGATGGATGTACAAC
















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|211097995|gb|FL191942.1|FL191942
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|110539727|gb|EE043647.1|EE043647
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211097991|gb|FL191938.1|FL191938
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|40337074|gb|CK371144.1|CK371144
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|5714219|gb|AI944204.1|AI944204
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCCCAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|148959987|gb|EE153226.2|EE153226
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|110963677|gb|EE183577.1|EE183577
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211279487|gb|FL438453.1|FL438453
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCT
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCT
EST: gi|6973476|gb|AW438170.1|AW438170
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|37387034|gb|CF630709.1|CF630709
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|5804665|gb|AI979635.1|AI979635
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|32862926|gb|CF002608.1|CF002608
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGTCTT-CTATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTG-CTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211097994|gb|FL191941.1|FL191941
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|7135086|gb|AW497909.1|AW497909
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211100471|gb|FL191952.1|FL191952
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|32833393|gb|CD973071.1|CD973071
EST:     CAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|31558808|gb|CD528020.1|CD528020
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|67010625|gb|CO439374.1|CO439374
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211100464|gb|FL191945.1|FL191945
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|149112806|gb|EE295616.2|EE295616
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211100468|gb|FL191949.1|FL191949
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|148935864|gb|EC879912.2|EC879912
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211097989|gb|FL191936.1|FL191936
EST:     CTGCGTTGGNCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211097993|gb|FL191940.1|FL191940
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|67037617|gb|CO464403.1|CO464403
EST:     CTGCGATGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCTTAG-ACACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|7135470|gb|AW498102.1|AW498102
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211100475|gb|FL191956.1|FL191956
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|37397542|gb|CF636072.1|CF636072
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|148996194|gb|EE035466.2|EE035466
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211097990|gb|FL191937.1|FL191937
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211100467|gb|FL191948.1|FL191948
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|67022234|gb|CO450983.1|CO450983
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|5499418|gb|AI855285.1|AI855285
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211100474|gb|FL191955.1|FL191955
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCATTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211100473|gb|FL191954.1|FL191954
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|4572849|gb|AI586498.1|AI586498
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGGCTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211279488|gb|FL438454.1|FL438454
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCT
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCT
EST: gi|211100472|gb|FL191953.1|FL191953
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|4837470|gb|AI670560.1|AI670560
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACT
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACT
EST: gi|78022156|gb|DV490543.1|DV490543
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|5525508|gb|AI861401.1|AI861401
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|32832416|gb|CD972094.1|CD972094
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|211097996|gb|FL191943.1|FL191943
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
EST: gi|109637413|gb|EC590958.1|EC590958
EST:     CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAG                         GCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
genomic: CTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG

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: 73

GTTAAATCAGGCACTTTGTTTGACAACATCATCATCACTGATGATCCTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 137

GTTAAATCAGGCACTTTGTTTGACAACATCATCATCACTGATGATCCTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 140

GTTAAATCAGGCACTTTGTTTGACAACATCATCATCACTGATGATCCTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 952

GTTAAATCAGGCACTTTGTTTGACAACATCATCATCACTGATGATCCTGCGTTGGCCAAGACTTTTGCAGAGGAGACATGGGGCAAGCACAAGGAGgtgtgttttt ... tccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcagtaactcagggttgattcatgcatgcactaactatgttggtccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG
                              cactaac  putative branch site (score: 952)
                                             tccttatc  putative PPT
                                 taactat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgtttttttcctcgtaacagctctcaatcagtaactcagggttgattcatgcatgcactaactatgttggtccttatcagGCAGAGAAGACTGCTTTCGATGAGGCTGAGAAAAAGAAGGAAGAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG