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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttgttctatgttgttctgcaatttatcagtttgttttaatgctaggaaggtccttttgaatcagcatacctgagatgtgttcttatactaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA

Basic information

species Zea mays
transcript GRMZM2G181359_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g54340.2 (Oryza sativa), 3'ss of exon 2
attttgttctatgttgttctgcaatttatcagtttgttttaatgctaggaa---ggtccttttgaatcagcatacctga--gatgtgttcttatactaaatgc-agGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA
      ||  |  |  || | || ||| |||| ||||||  |||||||||     |  | | | |||  |  || ||||  ||| |  ||||  | ||||| | ||| || ||||||||||| || ||| |||| ||||| ||||| |||||| | || |||||||| ||||||||||||||||| |||||| | |||
------tttcacatcattgttcagtttgtcagcttgtttagatgctaggagtttagcacatgttaattggtctatctgactgatatactctttcattaaatcccagGGATTAAGGAGTCTGACACTGGGCTGGCACCACCCAGCCAATGGGATCTAGTATCAGATAAGCAGATGATGCAAGAAGAGCAACCGCTGCAA

upper sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G45140.1 (Glycine max), 3'ss of exon 2
attttgttctatgttgttctgcaatttatcagtttgttttaatgctaggaaggtccttttgaatcagcatacctg---agatgt---gttcttatactaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA
     | |   || | || ||    ||  | | ||||||||||   |  ||  | | |   |    |  ||| |    | ||||    ||  | |  |   || |||||| |||||||||||||| || || ||| |||| |||||||||||| | ||||| |||||||| |||||||| || || || ||  | || 
-----gataattggtattttggggatttgctgattgttttaattgcacaaac-tgcatacaatcttgtgtacttttgtaaatgttagatttcttttgttgttgtagGTATCAAGGAGTCTGATACTGGTTTAGCTGCACCAAGCCAGTGGGATCTTGTTTCTGATAAACAAATGATGCAGGAGGAGCAGCCTCTTCAG

upper sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA16G01810.1 (Glycine max), 3'ss of exon 2
-----attt-tgttctatgttgttctgcaatttatcagtttgttttaatgctaggaaggtccttttgaatcagcatacctgagatgtgttcttatactaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA
     |||| | || |||| || |   |   | ||      |  |  |||||   ||    |||   || |  |  |  ||  | |  | || ||  || |   |||||| |||||||||||||| || || ||  |||| |||||||||||| | ||||| ||||| || |||||||| ||||| || ||  | || 
gttgcatttatattttatgctgattgtc--ctaattgcacggaatctatgctgttaa--cacttgcaaacctcctcaaatgtta-gcttcctgatgttaca-atagGTATCAAGGAGTCTGATACTGGATTAGCAGCACCAAGCCAGTGGGATCTTGTTTCTGATAAGCAAATGATGCAGGAAGAGCAGCCTCTTCAG

upper sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G05220.1 (Glycine max), 3'ss of exon 2
attttgttctatgttgt-tctgcaatttat-cagtttgttttaatgctaggaa---ggtccttttga-atcagcatacctg---agatgtgt---tcttatactaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA
            ||||  | |  | ||||| | | ||||  ||||  || | |   | | || || | |   | | ||||    | |||| |   || | |  | |    ||||||||||||||||||||| || || ||| |||| |||||||||||| | ||||| ||||| || |||||||| || || || ||  | || 
------------gttgcatttatagtttatactggttgtcctaattgtatggactggatgctgttaacacttgtacacctccttaaatgtttgcttcctgttgttacaatagGTATAAAGGAGTCTGATACTGGTTTAGCTGCACCAAGCCAGTGGGATCTTGTTTCTGATAAGCAAATGATGCAGGAGGAGCAGCCTCTTCAG

upper sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA03G42370.2 (Glycine max), 3'ss of exon 2
attttgttctatgttgttctgcaatttatcagtttgttttaatgctaggaaggtccttttgaatca-gcatacctg-agatgt---gttcttatactaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA
     | |   || | || ||    ||  | | || | |||||   |  ||   | |  ||  |   | |    || | ||||    ||  | |  |   || |||||| |||||||||||||| || |||||| |||| |||||||||||| | ||||| |||||||| |||||||| || || || ||  | || 
-----gataattggtattttggggatttgctgattatcttaattgcataaactgcatactgtcttgtgtacttttgtaaatgttagatttcttttgttgttgtagGTATCAAGGAGTCTGATACTGGTTTGGCTGCACCAAGCCAGTGGGATCTTGTTTCTGATAAACAAATGATGCAGGAGGAGCAGCCTCTTCAG

upper sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S49_256V6.1 (Physcomitrella patens), 3'ss of exon 2
-------------------attttgttctatgt--tgttctgcaattt------atcagtttgttttaatgctaggaaggtcct-----tttgaatcagcatac---ctgagatgtgttcttatactaaat-----gcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA
                    ||  |  |  |||   |  | | |||||      ||  ||    ||| ||| ||    | | ||     |||       ||| |    |  ||    | ||| ||  || |     ||||| || || ||||| || || || |||||    || || |||||||||||||| || || ||||| ||||||||||| ||||||||  | || 
gtatgaaccattttgtttttttgagcccggtgtaacgcacgggaattttgagctatgggtcctattttatgatacagtgcttctcaattttttggcttccattcactttctgacaattacttgtatcaatttatgagcagGAATCAAAGAGTCAGACACTGGATTGGCAGTGCCCAGTCAGTGGGATTTGGTATCGGACAAACAAATGATGCAAGAGGAACAACCACTGCAG

upper sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 2
lower sequence: PP1S152_13V6.2 (Physcomitrella patens), 3'ss of exon 2
attttgttctatgttgttctgcaatt-tatcagtttgttttaatgctaggaaggtccttttgaatcagcatacctgagat-gtgttcttatactaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA
  | |||   |   ||||      |  ||  | | |||   | | |    |     ||||  | | ||  |    ||| | ||  | | |    |   ||||| || || ||||| || || ||| ||||    ||||| ||||||||| | || |||||||| |||||||||||||| |||||||| || || 
-gtatgtagga-actgtttgatggtcctaatattgtgtgacatttcgcttacctctctttccatttagtttctaagagttagttgtgtcacggcatgagcagGAATCAAAGAGTCCGACACCGGGCTGGCAGTGCCTAGTCAGTGGGATCTCGTATCAGATAAGCAGATGATGCAAGAGGAACAACCATTGCAG

upper sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ29161 (Selaginella moellendorffii), 3'ss of exon 2
attttgttctatgttgttctgcaatttatcagtttgttttaatgctaggaaggtccttttgaatcagcatacctgagatgtgttcttatactaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA
                                                    || | ||   |||    | |  |   | | |     | ||   | |||| || |||||||| || || ||  | ||  | ||||||||||||||| |||| || ||||| || |||||||||||||| || ||  | |||
----------------------------------------------------gtgcgttgcgatct---tgctgggcttttttgagcgtgcttt-tccagGGATCAAGGAGTCCGACACTGGTCTAGCAGCTCCTAGCCAGTGGGATCTGGTGTCTGATAAGCAAATGATGCAAGAAGAGCAGCCACTGCAA

upper sequence: GRMZM2G181359_T01 (Zea mays), 3'ss of exon 2
lower sequence: EFJ13722 (Selaginella moellendorffii), 3'ss of exon 2
attttgttctatgttgttctgcaatttatcagtttgttttaatgctaggaaggtccttttgaatcagcatacctgagatgtgttcttatactaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA
                                                |     |  |||   |  || |   ||||  ||| | ||          |||| || |||||||| || || ||  | ||  | ||||||||||||||| |||| || ||||| || |||||||||||||| || ||  | |||
----------------------------------------------gtgcgttgcgattttgctgggcttttttgag-cgtgctttt---------ccagGGATCAAGGAGTCCGACACTGGTCTAGCAGCTCCTAGCCAGTGGGATCTGGTGTCTGATAAGCAAATGATGCAAGAAGAGCAGCCACTGCAA

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|31998161|gb|CD661959.1|CD661959
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|148939474|gb|EC884049.2|EC884049
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|32909117|gb|CF013929.1|CF013929
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|32835480|gb|CD975158.1|CD975158
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|148986522|gb|EE030276.2|EE030276
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|148941059|gb|EC885918.2|EC885918
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|28987578|gb|CB351704.1|CB351704
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|148940274|gb|EC885053.2|EC885053
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|211087536|gb|FL161883.1|FL161883
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|149102256|gb|EE287643.2|EE287643
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|148940455|gb|EC885254.2|EC885254
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|32833938|gb|CD973616.1|CD973616
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|148981623|gb|EE027766.2|EE027766
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|26457221|gb|CA828804.1|CA828804
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|149078548|gb|EE167330.2|EE167330
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|211087533|gb|FL161880.1|FL161880
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|211087537|gb|FL161884.1|FL161884
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATANCAGGGTTGGCTCCACCTAGCCAGTGGGATTTG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATA-CAGGGTTGGCTCCACCTAGCCAGTGGGATTTG
EST: gi|148933068|gb|EE285985.2|EE285985
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|67042393|gb|CO468648.1|CO468648
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|149004352|gb|EE039050.2|EE039050
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|148933233|gb|EC876884.2|EC876884
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|148943018|gb|EC888066.2|EC888066
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|148952264|gb|EC898073.2|EC898073
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|60401248|gb|DN234055.1|DN234055
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|149077295|gb|EE165971.2|EE165971
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|211087539|gb|FL161886.1|FL161886
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGA
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|21390185|gb|BQ528234.1|BQ528234
EST:     GGTCGTTATGGAGATCATGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|148968071|gb|EE019406.2|EE019406
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|149040621|gb|EE046862.2|EE046862
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|149107887|gb|EE292247.2|EE292247
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
EST: gi|211087532|gb|FL161879.1|FL161879
EST:     GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTG                         GTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG
genomic: GGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGG

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: 1139

GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 1122

GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 857

GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1034

GGGCTTGGGCCGTACTCGACTAGCATTAAGAAGGTCGAGAAGGAGATCAAGGAAATGGCCAAGAAAATCAATGACCTTTGTGgtgagtgata ... ctaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggaaggtccttttgaatcagcatacctgagatgtgttcttatactaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA
                                           tactaaa  putative branch site (score: 1034)
                                     ttcttatactaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attttgttctatgttgttctgcaatttatcagtttgttttaatgctaggaaggtccttttgaatcagcatacctgagatgtgttcttatactaaatgcagGTATAAAGGAGTCTGATACAGGGTTGGCTCCACCTAGCCAGTGGGATTTGGTTTCAGATAAACAGATGATGCAAGAAGAACAACCGTTACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
-ttttgtt
- - - - - - - -gttctgc
- - - - - - - - - - - - - - - - - - - - - tgctagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatacc