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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaattccttcgtccacgtctcctcgtcatcctcatcctctctgccgctatagcttattatgccgcttcctggacggacctgaacgatggcctgctttgcttctctgccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG

Basic information

species Zea mays
transcript GRMZM2G146463_T03
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146463_T02 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os07g26900.1 (Oryza sativa), 3'ss of exon 9
gtcaattccttcgtccacgtctcctcgtcatcctcatcctctctgccgctatagcttattatgccgcttcctggacggacctgaacgatggcctgctttgcttctctgccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG
                        | |    |||| ||  ||  | ||   | | | ||    | |||      |   | |||   |   | |||  |    | | | || | ||||| |||||||||||||||||||| || ||||| ||| || || ||||||||||||||||| ||||||| ||||| || ||||||
---------------------gtatagctggcctcctcaccttcgtcgtcttcgttgat----ctgct------atatatctgtctgtctgtctgtctctaatttgttcc-ctgcagATCCTGACATGCTGGAGGTCGGCAATGGAGGGATGACGAACGACGAGTACGTCGTGCACATCAGCCTTTGGGCGATTGCCAAG
















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|22935898|gb|BU572173.1|BU572173
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|71443279|gb|DR824329.1|DR824329
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|86465787|gb|DY232160.1|DY232160
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|78113278|gb|DV531670.1|DV531670
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|86466262|gb|DY232634.1|DY232634
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|22472587|gb|BU037067.1|BU037067
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|148973153|gb|EE024223.2|EE024223
EST:     CGACCTGAACGACGCCTACGCCCCGTACGCCCAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGT
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGT
EST: gi|26560002|gb|CA832237.1|CA832237
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|71443417|gb|DR824467.1|DR824467
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|50334851|gb|CO529977.1|CO529977
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|60357458|gb|DN224431.1|DN224431
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|87157241|gb|DY402030.1|DY402030
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|91874598|gb|EB404555.1|EB404555
EST:     CGACCTGAACGACGCCTTCGCCCGGTACGCCAAGCCCGGCGGGTGGGACG                         GCCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|71443280|gb|DR824330.1|DR824330
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCNAGCCCGGCGGCTGGAACG                         ACCCTGACATGC
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGC
EST: gi|78113279|gb|DV531671.1|DV531671
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCNAGCCCGGCGGCTGGGACG                         ACCCTGACATGCTGGAGGTCGGGGACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|23199550|gb|BU582115.1|BU582115
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|78075209|gb|DV503643.1|DV503643
EST:     GACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCCGGCGGCTGGAACG                         ACCCTGACATGCTGG
genomic: GACCTGAACGACGCCTACGCCCGGTACGCCAAGCCC-GGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGG
EST: gi|71318125|gb|DR795824.1|DR795824
EST:     CGGCCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|91054334|gb|EB164752.1|EB164752
EST:     CCGGTACGCCAAGCCCGGCGGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CCGGTACGCCAAGCCCGGC-GGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|71318127|gb|DR795825.1|DR795825
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGC
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGC
EST: gi|149055655|gb|EE156360.2|EE156360
EST:     CGACCGGAACGACGCTTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|26559550|gb|CA831785.1|CA831785
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|78110547|gb|DV528957.1|DV528957
EST:     GACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCCGGCGGCTGGAACG                         ACCCTGACATGCTG
genomic: GACCTGAACGACGCCTACGCCCGGTACGCCAAGCCC-GGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTG
EST: gi|87156914|gb|DY401703.1|DY401703
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
EST: gi|149055656|gb|EE156361.2|EE156361
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGT
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGT
EST: gi|78088430|gb|DV516823.1|DV516823
EST:     CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACG                         ACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG
genomic: CGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACG

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 1 RNA-Seqlibrary.


Block sizes: 24 (upstream exon), 26 (downstream exon)
Score: 1

CATGCTGGACAACATCGACCTGAACGACGCCTACGCCCGGTACGCCAAGCCCGGCGGCTGGAACGgtcaattcct ... gccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccgcttcctggacggacctgaacgatggcctgctttgcttctctgccgcagcagACCCTGACATGCTGGAGGTCGGGAACGGAGGCATGGCGTACAACGAGTACGTCGTGCACTTCAGCCTCTGGGCCATCGCCAAG
                                 ctttgcttctctgcc  CT-rich tract