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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagcatgaggcttttatggggatctagtaattagctgtgatctatggagcacttttagcagcttctccatcttcaagattcttgctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC

Basic information

species Zea mays
transcript GRMZM2G126821_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126821_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g08440.2 (Oryza sativa), 3'ss of exon 1
cagcatgaggcttttatggggatctagtaattagctgtgatctatggagcacttttagcagcttctccatcttcaa-----gattcttgctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
  |    |   ||  || |  | || ||    || | ||  ||   |  |  ||      |  |||  |   | ||     ||   | | | |||   ||   ||| ||||||||||||||||| ||||||||||||||||| |||||||| || |||||||| || |||||||| |||||||| ||||||||||| ||||||||
--gtggcatagttgcattgcaacct-gttgcaaggtatg--ctgctgttcttttgggagggtatcttgaatatgaatacgtgaacatcgttgctgcaattcatagGTATCTACATCATCAACCTCGGCAAGACATGGGAGAAGCTGCAGCTCGCGGCGAGGGTGATTGTTGCCATTGAGAACCCCCAGGACATCATTGTCCAGTC

upper sequence: GRMZM2G126821_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 1
-------cagcatgaggcttttatggggatctagtaattagctgtgatctatggagcacttttagcagcttctccatcttcaagattcttgctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
            |   ||| |||||  ||| |  |   | |||       || |||   |||| |    ||       ||     || | | |  ||||||| ||||| || ||||| || |||||||| |||||||||||||| || |||||||| || ||| |||| || ||||| |||||||| ||||| |||||||| |||||
tttttttttttgtaccgctgttatgaagatttcct--cttgctactgaa-atagagacattttggagtttttgttgaattt----ttgtggtttatgtttttttcagGTATTTACATAATTAACCTTGGAAAGACATGGGAGAAGCTTCAGCTTGCTGCTAGGATTATAGTCGCCATTGAGAACCCACAGGATATCATCGTTCAGTC

upper sequence: GRMZM2G126821_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA15G42150.1 (Glycine max), 3'ss of exon 1
cagcatgaggcttttatggggatctagtaattagctgtgatctatggagcacttttagcagcttctccatcttcaa---gattcttgctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
  || |  | ||||| ||     |||  |   || | |  ||| ||   |     ||| |  || |  |  ||       ||| |||    |  | || ||||| || ||||| || ||||||||||||||||||||||| || ||||| || || ||| |||| |||||||| |||||||| ||||| ||||| || |||||
-ggcgtttg-cttttttgcaccgctaccatgaaggtttcctct-tgctactgaaatagaacattttggagtttttgttgaatttttgtggtttatgttttcagGTATTTACATAATTAACCTTGGCAAGACATGGGAGAAGCTCCAGCTCGCTGCTAGGATTATTGTTGCCATTGAGAACCCACAGGATATCATTGTTCAGTC

upper sequence: GRMZM2G126821_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA16G01460.1 (Glycine max), 3'ss of exon 1
------------------------------------------cagcatgaggcttttatggggatctagtaattagctgtgatctatggagcacttttagcagcttctccatcttcaagattcttgctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
                                           |  || |   ||  ||||   | |   |||  ||  |   || |     |    | | |  ||       ||     |  ||   | | |    || ||| || ||||| || |||||||| |||||||||||||| || ||| | ||||| |||||||| ||||| || |||||||| ||||| ||||| || || ||
gtaactgaacttttctcgttctctcttttatcatctcgttaaaaaaattaaatttcaatggatgtttg--aatctgcaatag-ctgtaatagaggaattgaattttgatttgatttggtgtggtttggatt-tgggaattagGGATTTACATTATTAACCTTGGGAAGACATGGGAGAAGCTTCAGTTAGCAGCTAGGGTTATTGTTGCAATTGAGAACCCTCAGGATATCATTGTTCAATC

upper sequence: GRMZM2G126821_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 1
cagcatgag-gcttttatggggatctagtaattagctgtgatctatggagcacttttagcagcttctccatcttcaagattctt--gctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
  | ||  | |||  | || |    |  |  |    | |  |  ||  |  | | | ||  |    |         || || |   | |   ||  || ||||| || |||||| ||||||||||||| |||||||| || || ||| | || || || ||||| |||||||| |||||||| ||||||||||||||||||||
--gtatttgtgctagtgtgtgttattgttgctcttttattgta-atttacaattgtaagtggtgagtatggaacttagtttttgaagttttcgtcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTGCTAGAGTTATTGTTGCCATTGAGAACCCACAGGACATCATCGTCCAGTC

upper sequence: GRMZM2G126821_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv09s0002g00610.t01 (Vitis vinifera), 3'ss of exon 1
-cagcatgaggcttttatggggatctagtaattagctgtgatctatggagcacttttagcagcttctccat--cttcaagat-tcttgctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
 |    || ||    ||    ||| |  |   |    | | | | | |   |  |  |     ||  |||    || ||||| | |||    | |  | |||||| || ||||||||||||||||| || ||||||||||| |||||||||||||| ||||| || ||||| || ||||||||  |||||||||| || |||||
accatctgcggaaaataacatgatttgatggatgatcg-gttttgtag---atatgaaatgattttgccaaaattttaagatcttttgtctttctaatgatcagGGATTTACATCATCAACCTTGGAAAAACATGGGAGAAGCTGCAGCTTGCAGCCAGGGTGATTGTTGCGATTGAGAACCCTAAGGACATCATTGTTCAGTC

upper sequence: GRMZM2G126821_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S173_16V6.1 (Physcomitrella patens), 3'ss of exon 1
------------------------------------------------------------------------------------cagcatgaggcttttatggggatctagtaattagctgt--gatctatggagcacttttagcagcttctccatcttcaa-----gattcttgctact----gtttttat----cagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
                                                                                     |  || ||| ||    | | |  ||  | ||   | |  ||  | || |    |||| |  |  ||    | |         || | |||   ||    |  |   |    |||| || | |||||| ||  | || ||||| |  ||||| ||| |||| || |||||||| || | ||||||||||||||| ||||||||||| || |||||
gtgagaactctgtcccctccattgtttgtcctcgtcccggtgtgttatcggtgtgggcttggggtgagaagtttctgtgttatgaatgataagggttcggggtgaagatacaagtttttttttggacgtgtgtatatgttttggacgggtcgtggtttggggtggttgactattgtggcttggcgggtccgttgcgcagGTATTTTCATCATTAATGTGGGAAAGACTTACGAGAAGCTGGAGCTGGCGGCGAGGGTGATTGCTGCCATCGAGAACCCTCAGGACATCATTGTGCAGTC

upper sequence: GRMZM2G126821_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S209_48V6.1 (Physcomitrella patens), 3'ss of exon 1
-----------------------------------------------------------------------cagcatgaggcttttatgggga-tctagta--attagctgtgatctatggagcacttttagcagcttctccatcttcaagattcttgctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
                                                                         |   | ||       ||||  | | ||     | |   || | | || ||       |    |      |         || ||        | |   ||||||| | |||||||||| | |||||||| |  ||||| ||| |||| || |||||||| || | ||||||||||||||||||||||||||||||||||||
gtaattagggctttttccccctgtggcccgtgttggggtttggttgggtgcgtgtgcgagtgttcgttttttggtgcgggggcggcgcggggggtttggtgcggatggaattggtttgtgaaggtgggcgattgacgagggtagtggggtcgttgttttattctgtgtgggcagGCATTTTCATCATCAACGTGGGCAAGACCTACGAGAAGCTGGAGCTGGCCGCGAGGGTGATTGCTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC

upper sequence: GRMZM2G126821_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S59_133V6.1 (Physcomitrella patens), 3'ss of exon 1
-------------------------------------------------------------------------------------------cagcatgaggcttttatggggatctagtaattagctgtgatctatgg-agcact-tttagcagcttctccatcttcaagattcttgctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
                                                                                             | ||| |      |||        ||  || |    | |   ||   |  ||      | |  | |        || | | | |   |     |   ||||||| |  || |||||| |||||||||| |  ||||| ||  ||||||| |||||||| || |  ||||||||||||||||||||||| ||||| |||||
gtattaattctcattagggttattccttagacaatttctagttgtggaatgggctcggtgtcgtcgttgtcgtcgtcttcttgcttggtttacggatgggtgcgcaatgcatgcagcgttgttcgtaacgttgcgtgccggtgctgccctccggtatgtgtggtggtaacaatgtggtcgcatcggtggacagGCATTTTTATTATCAACGTTGGCAAGACCTACGAGAAGCTTGAGCTTGCTGCGAGGGTGATTGCGGCCATCGAGAACCCGCAGGACATTATCGTGCAGTC

upper sequence: GRMZM2G126821_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S48_103V6.1 (Physcomitrella patens), 3'ss of exon 1
------------------------------------------------------cagcatgaggcttt--tatggggatctagtaattagctgtgatctatggagcacttttagcagcttctccatcttcaagattcttgctactgttttt-----------atcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
                                                       ||  |  |  |||  |  | ||     |   || | |  |      | ||   |||  |    |   |  |   | ||  |  ||     ||||||             |||| || | |||||||||  | |||||||| |  || || ||| |||| || |||||||| || | ||||||||||||||| ||||||||||||||||||||
gtaattagggtttttcctcctgtggcccgttggggtttggttaggtgcttgtgcaagtgttcgtttttggtgcgagggcgcgggggtttggttcgga--gggaagtggtttgtgatagtgggctgttgacgagggtagtgacgtcgttttttattttgtgtgggcagGTATTTTCATCATCAATGTGGGCAAGACCTACGAAAAGCTGGAGCTGGCCGCGAGGGTGATTGCTGCCATCGAGAACCCCCAGGACATCATCGTCCAGTC

upper sequence: GRMZM2G126821_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ20712 (Selaginella moellendorffii), 3'ss of exon 1
cagcatgaggcttttatggggatctagtaattagctgtgatctatggagcacttttagcagcttctccatcttcaagattcttgctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
                                              |     |  |||  |||||||    |   || ||  || | |         ||||||||| |||||||||| |||| ||||| |||||||| || ||||| || ||  | || || || | |||||||||||| || || |||||||| |||||
----------------------------------------------gtaagatcctagtcgcttctcgcgatcttagctttgtggtgcca-------cagGCATCTTCATCATCAACGTTGGGAAGACGTGGGAGAAGCTCCAGCTCGCGGCCCGCGTGATTGTGGGCATCGAGAACCCCCACGATATCATCGTGCAGTC

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|31355138|gb|CD439495.1|CD439495
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211398272|gb|FL293836.1|FL293836
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31361726|gb|CD446083.1|CD446083
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31349731|gb|CD434088.1|CD434088
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211395649|gb|FL293822.1|FL293822
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211395641|gb|FL293814.1|FL293814
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|6564117|gb|AW231739.1|AW231739
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|20512934|gb|BQ280120.1|BQ280120
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCTTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|148940170|gb|EC884930.2|EC884930
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31355003|gb|CD439360.1|CD439360
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211003421|gb|FL293845.1|FL293845
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATSGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31360330|gb|CD444687.1|CD444687
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|32910085|gb|CF014897.1|CF014897
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|149014518|gb|EE044147.2|EE044147
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31628197|gb|CD526489.1|CD526489
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|87151812|gb|DY396601.1|DY396601
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GTATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211395648|gb|FL293821.1|FL293821
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|148965698|gb|EE016561.2|EE016561
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211540691|gb|FL218506.1|FL218506
EST:     GAACTGCGATTTCCARATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31612195|gb|CD568817.1|CD568817
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211003426|gb|FL293850.1|FL293850
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATSGGAGAWACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31353313|gb|CD437670.1|CD437670
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31353712|gb|CD438069.1|CD438069
EST:     ATGCCTTTAAGCGCCGCACCGACG                         GCATCTCCTTCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: ATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|148959151|gb|EE010618.2|EE010618
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|67037375|gb|CO464213.1|CO464213
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31355252|gb|CD439609.1|CD439609
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31353393|gb|CD437750.1|CD437750
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|30087259|gb|CB885467.1|CB885467
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCTTCCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211003423|gb|FL293847.1|FL293847
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|20300615|gb|BQ163558.1|BQ163558
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GTATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|20507410|gb|BQ279619.1|BQ279619
EST:     GAACTGCGATTTCCAGATGGAGTGCTATGCTTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|20802825|gb|BQ293875.1|BQ293875
EST:     GAACTGCGATTTCCAGATGGTGCGCTATGCTTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|5268395|gb|AI770359.1|AI770359
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCTTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211395646|gb|FL293819.1|FL293819
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211395638|gb|FL293811.1|FL293811
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|149081112|gb|EE170216.2|EE170216
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|148981763|gb|EE027869.2|EE027869
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|22472740|gb|BU037220.1|BU037220
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCTTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGATATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211003425|gb|FL293849.1|FL293849
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGGCAAGACATGGGAGAAACTGCAGCTTGCA
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGG-CAAGACATGGGAGAAACTGCAGCTTGCA
EST: gi|149095196|gb|EE180817.2|EE180817
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|67028726|gb|CO457475.1|CO457475
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|149108470|gb|EE292795.2|EE292795
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|88757934|gb|DY542075.1|DY542075
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31353757|gb|CD438114.1|CD438114
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|149084483|gb|EE173945.2|EE173945
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|31355761|gb|CD440118.1|CD440118
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|148959775|gb|EE011015.2|EE011015
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|149082244|gb|EE171430.2|EE171430
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|20301420|gb|BQ164363.1|BQ164363
EST:     GAACTGCGATTTCCAGATGGTGCTCTATGCTTTTAAGCGCCGCACCGACG                         GCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
EST: gi|211398273|gb|FL293837.1|FL293837
EST:     GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAACCGCCGCACCGACG                         GCATCBACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG
genomic: GAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAG

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: 265

GAGCAGGACATACAGATGATGCTCGCCGCCGACGTCCACCTTGGCACCAAGAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 181

GAGCAGGACATACAGATGATGCTCGCCGCCGACGTCCACCTTGGCACCAAGAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 183

GAGCAGGACATACAGATGATGCTCGCCGCCGACGTCCACCTTGGCACCAAGAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 122

GAGCAGGACATACAGATGATGCTCGCCGCCGACGTCCACCTTGGCACCAAGAACTGCGATTTCCAGATGGAGCGCTATGCCTTTAAGCGCCGCACCGACGgtatctgcct ... tttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggagcacttttagcagcttctccatcttcaagattcttgctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC
                                          ctgttttt  CT-rich tract
                                           tgtttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cagcatgaggcttttatggggatctagtaattagctgtgatctatggagcacttttagcagcttctccatcttcaagattcttgctactgtttttatcagGCATCTACATCATCAACCTTGGCAAGACATGGGAGAAACTGCAGCTTGCAGCGAGGGTTATCGTTGCCATCGAGAACCCGCAGGACATCATCGTCCAGTC

cagcatg
- - - - - - - - - - - - - - - - agctgtg
- - - - - - - - - - - - - - - - - - - - - - tggagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctactg