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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtccttgctgttaattgaattctctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaagcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA

Basic information

species Zea mays
transcript GRMZM2G002416_T01
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G002416_T01 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os01g19450.1 (Oryza sativa), 3'ss of exon 16
---------------------------gtgagtccttgctgttaattgaattct---ctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaa--gcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA-
                            |||||   |     ||  |||||  |    | | |||      |  ||  |||  |||   |||  |   |   |  ||  |||  |   |   |  ||  | |||    | |   | ||   | || |  ||||  ||| | |||  ||| | ||| |||||| ||||| |||||||||||||||||||| ||||||||||| ||||||||||||||||| || ||||||||||||  |  |  || ||   ||    || 
gtgagtctcattcttgttgcattccaattgagtgggtatatctatatgaatgttatcttctagctgcttcctttaac-attagaataaatggtat---agactatagagatacgtc--cgttttgttaagtcatagtttcttttgtaatttccacatagctgatcaaatt-tgtcgctt-ggttcgcagGCACACCTTTGACCAGAAGAGGCTCAAGCAACCACTCTACCGCCACCCATGGGAGGATGTCCTCTACACCAAGTGAAGACTCGGTTGTTCTTAATAT-TAC

upper sequence: GRMZM2G002416_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA17G03700.1 (Glycine max), 3'ss of exon 15
gtgagtccttgctgttaattgaattctctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaagcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA
                                  |  |  |  |   |||    |  |       |  |    | |  |||| ||   |   ||||| ||       | ||  |  ||   ||  ||||  ||  ||| | ||           |||||||||||| |||||||||||| | || || ||||||||||| ||||||||||||||||| |||||||| |||                           
----------------------------------ttggactcac---gatctccacctccacaagcacaaag-gaaaaaatacatacacaa-tatttggg-------acttgtactaattcaccgttctttaattaatatttt-----------cagGCATACCTTTGACCAGAAGAGGTTGAAACAACCACTCTACCGCCACCCATGGGAGGATGTTCTTTACACAAAG---------------------------

upper sequence: GRMZM2G002416_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA15G15010.1 (Glycine max), 3'ss of exon 15
gtgagtccttgctgttaattgaattctctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaagcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA
                                        |   |||     |     |         |      | ||||| ||| | |    |||       ||| | |        |||||  |            | ||| ||  | |  |||||| || || ||||| ||| |  | ||||| ||||| ||||||||||||||||| ||||| || ||||| ||||||| |||   |   |  | |     |
----------------------------------------tcagaatctaaatccacctccaaacaaaagaaaataataata-attatgcatggtttcattggcttggtct--------caactcattcat--------tattatttaaaatttcagGCACACTTTTGACCAAAAGCGATTGAAGCAACCACTTTACCGTCACCCATGGGAAGATGTTCTCTACACAAAGTGAGGAAGTTTTGTCTGACTATAAGAA

upper sequence: GRMZM2G002416_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA15G15020.1 (Glycine max), 3'ss of exon 16
gtgagtccttgctgttaattgaattctctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaagcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA
                                                         ||    ||||| ||||     | || | |        |  | | | |   |  || |  |       ||  |   |   || ||||||||  | |  ||| || ||||| ||||| ||| |  | ||||| ||||| ||||||||||||||||||||||| || ||||| ||||||| |||   |      |       |
--------------------------------------------------------cttgcatgtcttttgttaatcaattaaactgagaatcttcatcgacctccaaaataaaaaattatgtcttggtctcattcat-tgttacttaaaatttcagACACACCTTTGACCAAAAGCGATTGAAGCAACCACTTTACCGTCACCCATGGGAGGATGTTCTCTACACAAAGTGAGGAAGTTTTGTGCGACTGTAAGAA

upper sequence: GRMZM2G002416_T01 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA07G36840.1 (Glycine max), 3'ss of exon 17
gtgagtccttgctgttaattgaattctctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaagcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA
                                  |  |  |  |   |||    |  |       |  |    | |  |||| ||    |  ||||| || | ||||      |  ||   |   ||||  ||  ||| | ||           |||||||||||| |||||||||||  | || || ||||||||||| ||||||||||||||||| |||||||| ||||||                        
----------------------------------ttggactcac---gatctccacctccacaagcacaaac-gaaaaaatacat---acagtatttgggacttttg-----tactaattcatcgttctttaattaatatttt-----------cagGCATACCTTTGACCAGAAGAGATTGAAACAACCACTCTACCGCCACCCATGGGAGGATGTTCTTTACACAAAGTGA------------------------

upper sequence: GRMZM2G002416_T01 (Zea mays), 3'ss of exon 11
lower sequence: AT3G06650.1 (Arabidopsis thaliana), 3'ss of exon 16
gtgagtccttgctgttaattgaattctctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaa-gcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA
                                                               ||    |||   |   | | | || | | | || |    |    ||||| |   | |    ||   |||| ||||| |||| |          ||||| || ||||| |||||||| || ||||||||||| ||||| ||||| ||||| |||||  | |||||||||| |  |   |||| ||  |      | 
---------------------------------------------------------------gtaac-tgtcataaccaaacacttacacttgttcttaaaaca-aatttaaattgatgtggattacgtgaataaaat-tgttgc----------agGCACACATTCGATCAGAAGAGACTGAAGCAGCCACTGTACCGACACCCGTGGGAAGATGTCTTGTACACCAAGTAATCATATCATTATTCACTTCTTCTG

upper sequence: GRMZM2G002416_T01 (Zea mays), 3'ss of exon 11
lower sequence: Vv05s0077g00950.t01 (Vitis vinifera), 3'ss of exon 16
gtgagtc--cttgctgttaattgaattctctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaagcaacttt-tctgaaaaaaatgtgtt--actttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA-
|| |||   ||| |  || |  || | |  ||    ||| | || |  || || || | | |     | |   || |     || | ||    |  |       |||  | ||  | |    |  ||  |||||      | |  |  | |   |  | |||||| || ||||||||||||||  | |||||||| || ||||||||||||||||||||||| || ||||||||||||||||   |    ||||  | || | 
gtaagttggcttacacttca--gagtccctttcctttctacctttc--tggtt-tattctct----ccctccatttctaccttaaacttggatcactgcatcatattccacttcaaacgcatagtttcctctgattggtttcttcttaattcaaaacctcagGCACACTTTCGACCAGAAGAGATTGAAGCAGCCCCTATACCGTCACCCATGGGAGGATGTCCTCTACACCAAGTGAGAAACTTACAGATTGCC-GACACAA

upper sequence: GRMZM2G002416_T01 (Zea mays), 3'ss of exon 11
lower sequence: PP1S46_63V6.3 (Physcomitrella patens), 3'ss of exon 14
gtgagtccttgctgttaattgaattctctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaagcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA
    || | || |   |  ||  |||  | |    || |     | |||||      | || ||| |  | ||||| | ||  ||| | ||  |||           ||  |   | |   | |  |    ||   ||    |   |||     ||| ||||| |||||||||||| | || |||||||| || ||||| |||||||||||||||||  | ||||||||||    |                     
----gtacgtgatcgcacgtgtgttcattgtaaagcttcaacagattgatt------tgtgtggtatcgttttgca-tgatgcattcttcc--att-----------atcaatgtcgatagaatcct----aatgtatccact-tattgtcctgcagACATACATTCGACCAGAAGCGTCTGAAGCAGCCTCTGTACCGGCACCCATGGGAGGATGTGTTGTACACCAAGTACACATAA------------------

upper sequence: GRMZM2G002416_T01 (Zea mays), 3'ss of exon 11
lower sequence: PP1S46_63V6.4 (Physcomitrella patens), 3'ss of exon 14
gtgagtccttgctgttaattgaattctctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaagcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA-
    || | || |   |  ||  |||  | |    || |     | |||||      | || ||| |  | ||||| | ||  ||| | ||  |||           ||  |   | |   | |  |    ||   ||    |   |||     ||| ||||| |||||||||||| | || |||||||| || ||||| |||||||||||||||||  | |||||||||| | | |   |||| |  || |   || 
----gtacgtgatcgcacgtgtgttcattgtaaagcttcaacagattgatt------tgtgtggtatcgttttgca-tgatgcattcttcc--att-----------atcaatgtcgatagaatcct----aatgtatccact-tattgtcctgcagACATACATTCGACCAGAAGCGTCTGAAGCAGCCTCTGTACCGGCACCCATGGGAGGATGTGTTGTACACCAAGT-ACACATAAATTCATAACACGATCTAG

upper sequence: GRMZM2G002416_T01 (Zea mays), 3'ss of exon 11
lower sequence: PP1S35_384V6.1 (Physcomitrella patens), 3'ss of exon 14
gtgagtccttgctgttaattgaattctctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaagcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA--
                   || |||| | || |  ||  |   | ||   | |  | |||    | || | ||  ||  || |  ||    |  || |    | |  | ||  | |||  |   ||       | | |  ||     || |   ||| || || ||||| |||||| | || |||||||| || ||||||||||| ||||||||||| || ||||| ||||    | |  | | | |   | ||  |  
----------------gtatgtattcacattcgtactcatgatcgatttctttcttattt---attttgtatt--agccat-tgcttgttacggttctccttagtgaactttaatcaaagatgctt-------atatttcgtcctgatggtctgcagTCACACATTCGATCAGAAGCGTCTGAAGCAGCCTCTGTACCGTCACCCGTGGGAGGATGTTCTGTACACTAAGTAC--ACGTAAATTTATATCAAGCTCAAA

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|32849280|gb|CD988961.1|CD988961
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATCCCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|16380216|gb|BI993376.1|BI993376
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|211265565|gb|FL011390.1|FL011390
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|76933084|gb|DV173319.1|DV173319
EST:     GTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTCCCGTCACCCATG
genomic: GTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|18166102|gb|BM335941.1|BM335941
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|32827107|gb|CD966785.1|CD966785
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|40334130|gb|CK368200.1|CK368200
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|5296109|gb|AI782984.1|AI782984
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|13558257|gb|BG549613.1|BG549613
EST:     GGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|32850115|gb|CD989796.1|CD989796
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|32794402|gb|CD946638.1|CD946638
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|211311191|gb|FL162156.1|FL162156
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|76933085|gb|DV173320.1|DV173320
EST:     GTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|32942155|gb|CF046974.1|CF046974
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|211172108|gb|FL336629.1|FL336629
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|32848009|gb|CD987690.1|CD987690
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
EST: gi|60398983|gb|DN231799.1|DN231799
EST:     GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGG                         GCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG
genomic: GGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATG

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: 126

CTGGAAGTGGAATGTTCACCAAACAGGAGATCGATGAGATTGTGGAGATCGGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 289

CTGGAAGTGGAATGTTCACCAAACAGGAGATCGATGAGATTGTGGAGATCGGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 250

CTGGAAGTGGAATGTTCACCAAACAGGAGATCGATGAGATTGTGGAGATCGGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1022

CTGGAAGTGGAATGTTCACCAAACAGGAGATCGATGAGATTGTGGAGATCGGTTATCTCAATGGGCTCTTTGTGCTTGCACGATCAATTGGCCTGATCGGgtgagtcctt ... tgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgatttacagcaagcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA
                                          ctttgat  putative branch site (score: 1022)
                                       ttacttt  CT-rich tract
                     ttttctgaaaaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtccttgctgttaattgaattctctttggctctgctttgcaatgattgtaatgtttggggtcttatgttgcagtaatatattttcccctattttggccatttgatttacagcaagcaacttttctgaaaaaaatgtgttactttgattcacagGCATACCTTCGACCAGAAGAGGCTCAAGCAGCCACTCTACCGTCACCCATGGGAGGATGTACTTTACACCAAGTGAGAAAGCCATTCTTTGCAAGGCATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
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