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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttatcggtctttccagcttcaatagtacttacatctgaagcacaaatttagacttaactgtacttgtcgacattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC

Basic information

species Zea mays
transcript GRMZM5G860137_T01
intron # 10
splice site 3'
intron type U2

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|71442413|gb|DR823463.1|DR823463
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTTTCT                         GTTGTTGCTATAGTTAATCAGAGGCTTTTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|78180536|gb|DV551029.1|DV551029
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|71426142|gb|DR807192.1|DR807192
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|93281947|gb|EB674211.1|EB674211
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|211211417|gb|FL472067.1|FL472067
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|149110542|gb|EE294180.2|EE294180
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTTTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|60353947|gb|DN220920.1|DN220920
EST:     CTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|110951057|gb|EE171162.1|EE171162
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|110202377|gb|EC884274.1|EC884274
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|149107170|gb|EE189057.2|EE189057
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|78544790|gb|DV622288.1|DV622288
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|71437289|gb|DR818339.1|DR818339
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|89760641|gb|DY688973.1|DY688973
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|71298332|gb|DR785147.1|DR785147
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTTTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|88748462|gb|DY532603.1|DY532603
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|37375775|gb|CF624352.1|CF624352
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|78544465|gb|DV621963.1|DV621963
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|6994169|gb|AW453383.1|AW453383
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|60353407|gb|DN220380.1|DN220380
EST:     AGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: AGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|211357448|gb|FL362295.1|FL362295
EST:     TATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: TATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|74232956|gb|DT640870.1|DT640870
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|6865254|gb|AW360604.1|AW360604
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|50322371|gb|CO517497.1|CO517497
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|149087111|gb|EE176650.2|EE176650
EST:     ACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: ACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
EST: gi|110939957|gb|EE160114.1|EE160114
EST:     CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCT                         GTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
genomic: CTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC

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: 46 (upstream exon), 42 (downstream exon)
Score: 22

GTTTACGACAGCTCCAGCCCTTGCCATTCCAAAGGCTATATCAAATGCAGCTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC


Block sizes: 48 (upstream exon), 42 (downstream exon)
Score: 114

GTTTACGACAGCTCCAGCCCTTGCCATTCCAAAGGCTATATCAAATGCAGCTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC


Block sizes: 49 (upstream exon), 42 (downstream exon)
Score: 97

GTTTACGACAGCTCCAGCCCTTGCCATTCCAAAGGCTATATCAAATGCAGCTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC


Block sizes: 47 (upstream exon), 42 (downstream exon)
Score: 29

GTTTACGACAGCTCCAGCCCTTGCCATTCCAAAGGCTATATCAAATGCAGCTCTTCAAACTTCACAGATAGATTATTATGAAGTAAATGAGGCTTTCTCTgtaagttatc ... acattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacttacatctgaagcacaaatttagacttaactgtacttgtcgacattggcagGTTGTTGCTATAGCTAATCAGAGGCTTCTTGGTATCCCTTCC
                   aaatttagacttaa  TA-rich tract