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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcgcgccccctccaattcgtgcgcttcgattttcctatatttctgtttacttgttctattgcagatatttttcctgattgtggatgttatggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG

Basic information

species Zea mays
transcript GRMZM2G079196_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g17180.1 (Oryza sativa), 3'ss of exon 1
gtaatcgcgccccctccaattcgtgcgcttcgattttcctatatttctgtttacttgttctattgcagatatttttcctgattgtggatgttatggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG
|||||| |       || ||||| || | |||      ||  |||   |||| |     |  ||         | || |    |||   | |    |    |||||||||||||||||| ||||||||||||||||| ||||| |||||||||||||||||||| ||||| ||||||||||| |||||||||||||
gtaatccccgatatcccgattcgcgc-cctcg------ctcgattgtcgtttccgcaccccctt--------ctctcatccccgtgatcggttccttttccagATGCGGACATGGAGGATTACGGGTTCGAGTACTCCGACGACGAGCCGGAGGAGCAGGATGTTGACATCGAGAACCAGTACTACAACTCCAAAG

upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA19G30100.1 (Glycine max), 3'ss of exon 1
gtaatcgcgccccctccaattcgtgcgcttcgattttcctatatttctgtttacttgttctattgca-gatatttttcctgattgtggatgttatggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG
    ||  ||         ||  ||   |||    |   |   ||  | |||||   ||   || || || | |      |  | ||  | || |  |   ||||||| || ||||||||||| || || |||||||| || || ||||  |||||||| ||||| || |||||||| || |||||||| || ||||
---ttctagctattcttttttgatgta-ttcataatagttggtttcatttttaccaattgacttacaagacactaagtaagtgtttgcttcttttattttgtagATGCTGATATGGAGGACTATGGATTTGAGTACTCAGATGAGGAGCAAGAGGAGCAAGATGTTGATATTGAGAATCAATATTACAATTCAAAAG

upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G14170.1 (Glycine max), 3'ss of exon 1
gtaatcgcgccccctccaattcgtgcgcttcgattttcctatatttctgtttacttgttctattgcagatatttttcctgattgtggatgttatggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG
                      || |||     || |  | | ||  |   | | | |  | ||   |||  |    || ||||      | |  |||  ||||||| ||||||||||||||||| ||||||||||| || || |||   | |||||| || || || || ||||| || |||||||| || ||||
----------------------gtacgcgcttgttgttgt-tgttgattaatgcatttggtgttat-gatgatgaaactaattgattgattgactgtg--tagATGCTGACATGGAGGACTACGGTTTCGAGTACTCCGATGAGGAGGAAGTGGAGCAAGACGTTGATATCGAGAATCAATATTACAATTCAAAAG

upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA03G00670.1 (Glycine max), 3'ss of exon 1
gtaatcgcgccccctccaattcgtgcgcttcgattttcctatatttctgtttacttgttc-tattgcagatatttttcc-tgattgtggatgttatggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG
    | ||      | |   |    ||  |  ||  |  |   ||||  |||||   ||    ||| ||| |    |   || |||    ||||||  ||  ||||||| || ||||||||||| || || |||||||| || || ||||  ||||| |||||||| || |||||||| || |||||||| || ||||
---tttgctagttattcttgtttgacgaattcataatagttggtttcattttaccatttgactttgaagacacaagtaagtgtttgcttctgttattctg--tagATGCTGATATGGAGGACTATGGATTTGAGTACTCAGATGAGGAGCAAGAGGAACAGGATGTTGATATTGAGAATCAATATTACAATTCAAAAG

upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA19G17660.1 (Glycine max), 3'ss of exon 1
gtaatcgcgccccctccaattcgtgcgcttcgattttcctatatttctgtttacttgttctattgcagatatttttcctgattgtggatgttatggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG
                   | || ||   | | | ||  | |  ||   | | | | |  | || | |||  |    || |||||     | || |||  ||||||| |||||||||||||| || |||||||||||||| || ||||  || ||||| || || || || ||||| || |||||||| || ||||
------------------gtacgcgcttgttgttattgttgttgttgattatgcatttggtgttac-gatgatgaaactaattgtttgattgattgtg--tagATGCTGACATGGAGGACTATGGCTTCGAGTACTCTGATGAGGAGCAAGAAGAGCAAGACGTTGATATCGAGAATCAATATTACAATTCAAAAG

upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT2G26990.1 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------gtaatcgcgccccctccaat--tcgtgcgcttcgattttcctatatttctgtttacttgttctattgcagat--at----ttttcctgattgtggatgtta--tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG
                        |||||     | ||  ||   ||  | | |   |  ||||   |||   |  |||||  | | || |  ||  ||    ||||  |||||  || | |    |  ||  ||||||| |||||||||||||| || |||||||| ||||| || ||||  ||||| || ||||| |||||||||||||||||||| ||||| ||||
gtcttgttcttgttttgctatgtctaatcttctactctgaaacaatctagggttcgaaagttcccgaatt--cgactacttactttgttacgaatcgatagtgttttattgatttgggttttcgatttttgtgtagATGCTGACATGGAGGACTATGGATTCGAGTATTCTGATGAGGAGCAAGAGGAACAAGATGTTGACATTGAGAACCAGTATTATAACTCTAAAG

upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv08s0040g00430.t01 (Vitis vinifera), 3'ss of exon 1
gtaatcgcgccccctccaattcgtgcgcttcgattttcctatatttctgttta-cttgttctattgcagatatttttcc---tgattgtggatgttatggtgat---tagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG
        |   |||  ||   ||||   |   || ||  |||    || |||  || |||| |    | |  ||       |||||  | ||  | |||   |   ||||||| ||||||||||| || || || |||||||| || || ||||| |||||||||||||| || |||||||| || |||||||| || ||||
--------gtatccttgaa--agtgcaaattctttctctcatacagatgcttaatttattctgtaatggtttgttaataaaatgatttggaattctttggcattctgtagATGCAGACATGGAGGATTATGGATTTGAGTACTCAGAAGAGGAGCCTGAGGAGCAGGATGTTGATATTGAGAATCAATATTACAATTCTAAAG

upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S124_47V6.1 (Physcomitrella patens), 3'ss of exon 1
----------gtaatcgcgccccctccaattcgtgcgcttcgattttcctatatttctgtttacttgttctattgcagatatttttcctgattgtggatgttatggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG
            |  |   | ||  |||  |          | |   | ||||| | ||||| ||| ||  || |   || | |||        ||||  | ||       |||||| |||||||| || || ||||||||||| || ||||| || || |||||||| ||||| || |||||||| || ||||| ||  ||||||
tcccgaaggcaaagacatactccacccagcttcattataatggtgaac-tatatatttgtttccttatttaatcg---atgtcttttgc-----tggacctgatcac----agATGCCGACATGGAAGATTATGGGTTCGAGTATTCGGACGAGGAACCCGAGGAGCAAGATGTTGATATTGAGAATCAATATTATAATACCAAAG

upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ29478 (Selaginella moellendorffii), 3'ss of exon 1
gtaatcgcgccccctccaattcgtgcgcttcgattttcctatatttctgtttacttgttc--tattgcagatatttttcctgattgtgg----atgttatggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG
||||  || | |     |   |  |||||        |     ||  || |  |  | |    ||||||   ||  |   | ||| | |     | |  |||||  |||| ||||||||||| || || || || |||||||| || ||||| || |||||||| |||||||| || ||||| ||||| |||||||| ||||
gtaa--gctctcttcgtagcgca-gcgctcactagggcgcgatttcttgctcccgcgcttggcattgcatggatcctcagtaattcttgcttggtttcgtggtgtatagACGCGGACATGGAAGATTATGGCTTTGAGTACTCGGAAGAAGACCCCGAGGAGCAAGATGTCGATATCGAGAATCAGTACTACAACTCTAAAG

upper sequence: GRMZM2G079196_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ28052 (Selaginella moellendorffii), 3'ss of exon 1
gtaatcgcgccccctccaattcgtgcgcttcgattttcctatatttct-gtttacttgttc--tattgcagatatttttcctgattgtgg----atgttatggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG
||||    || | || |    ||      ||| |    |   |||||| | |  |  | |    ||||||   ||  |   | ||| | |     | |  |||||  |||| ||||||||||| || || || || |||||||| || ||||| || |||||||| |||||||| || ||||| ||||| |||||||| ||||
gtaa----gctctcttcgtagcgcagcgctcgctagggcgcgatttcttgctcccgcgcttggcattgcatggatcctcagtaattcttgcttggtttcgtggtgtatagACGCGGACATGGAAGATTATGGCTTTGAGTACTCGGAAGAAGACCCCGAGGAGCAAGATGTCGATATCGAGAATCAGTACTACAACTCTAAAG

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|211294331|gb|FL267095.1|FL267095
EST:     CTAGCCCTCGCTCTCCSSGCTTGTTCCCGTCACCGCMATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CTAGCCCTCGCTCTCCC-GCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211290046|gb|FL267062.1|FL267062
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211292183|gb|FL267075.1|FL267075
EST:     TCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: TCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211287913|gb|FL267057.1|FL267057
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGACACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACCAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211294335|gb|FL267099.1|FL267099
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211294330|gb|FL267094.1|FL267094
EST:     GTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: GTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211294328|gb|FL267092.1|FL267092
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211294324|gb|FL267088.1|FL267088
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211287904|gb|FL267048.1|FL267048
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211294325|gb|FL267089.1|FL267089
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211292186|gb|FL267078.1|FL267078
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCANGGGCTCAG                         ANGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGA-G
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211292189|gb|FL267081.1|FL267081
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211292182|gb|FL267074.1|FL267074
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGA-G
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211292185|gb|FL267077.1|FL267077
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211294338|gb|FL267102.1|FL267102
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211287909|gb|FL267053.1|FL267053
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|76015005|gb|DT942175.1|DT942175
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211290042|gb|FL267058.1|FL267058
EST:     CCTAGACCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|31353952|gb|CD438309.1|CD438309
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCCTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211292194|gb|FL267086.1|FL267086
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         T
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattag-
EST: gi|211292194|gb|FL267086.1|FL267086
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         T
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattag-
EST: gi|211292190|gb|FL267082.1|FL267082
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAARAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211290053|gb|FL267069.1|FL267069
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211292191|gb|FL267083.1|FL267083
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211290052|gb|FL267068.1|FL267068
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211294337|gb|FL267101.1|FL267101
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211294333|gb|FL267097.1|FL267097
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211287903|gb|FL267047.1|FL267047
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|193502120|gb|AM937931.1|AM937931
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211294334|gb|FL267098.1|FL267098
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         WTGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGA-G
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211287905|gb|FL267049.1|FL267049
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211290048|gb|FL267064.1|FL267064
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211287908|gb|FL267052.1|FL267052
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211294327|gb|FL267091.1|FL267091
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211290045|gb|FL267061.1|FL267061
EST:     CTAGCCCATCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CTAGCCC-TCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211290054|gb|FL267070.1|FL267070
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211292188|gb|FL267080.1|FL267080
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAARAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211287910|gb|FL267054.1|FL267054
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211292193|gb|FL267085.1|FL267085
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGA-G
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211292192|gb|FL267084.1|FL267084
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211292187|gb|FL267079.1|FL267079
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGA
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGA
EST: gi|211294329|gb|FL267093.1|FL267093
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211294326|gb|FL267090.1|FL267090
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211290050|gb|FL267066.1|FL267066
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGA-G
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|14883495|gb|BI273378.1|BI273378
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG
EST: gi|211290043|gb|FL267059.1|FL267059
EST:     CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAG                         ATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGA-G
genomic: CCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGG

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: 188

CATCTGCTATCAGCGAGGACGAAGGCACAAACCCCTCACCTCCCTCAAACCCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 311

CATCTGCTATCAGCGAGGACGAAGGCACAAACCCCTCACCTCCCTCAAACCCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 330

CATCTGCTATCAGCGAGGACGAAGGCACAAACCCCTCACCTCCCTCAAACCCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 249

CATCTGCTATCAGCGAGGACGAAGGCACAAACCCCTCACCTCCCTCAAACCCTAGCCCTCGCTCTCCCGCTTGTTCCCGTCACCGCCATCATGGGCTCAGgtaatcgcgc ... tggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttacttgttctattgcagatatttttcctgattgtggatgttatggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG
                           tcctgat  putative branch site (score: 249)
                  agatattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatcgcgccccctccaattcgtgcgcttcgattttcctatatttctgtttacttgttctattgcagatatttttcctgattgtggatgttatggtgattagATGCGGACATGGAGGACTACGGGTTCGAGTACTCTGACGAAGAGCCGGAGGAGCAGGATGTCGACATTGAGAACCAGTATTACAACTCCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG