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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccatcgctaatcaatgtgctttttttagctcaagttaatagactgttatcgtaaaagtgttgtgatgatgtgaattaggtcatttcaccatttgattttgtttctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGGAGCCCTGATGGGCGAACATTTGCTACCGGCAACCAAGACAAGACATGCC

Basic information

species Zea mays
transcript GRMZM2G109039_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G109039_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g48964.1 (Oryza sativa), 3'ss of exon 9
--------gtaccatcgctaatcaatgtgctttttttagctcaagt-taatagact-gttatcgta-aaagtgttgtgatgatgtgaattaggtcatttcaccatttg--attttgtttctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGGAGCCCTGATGGGCGAACATTTGCTACCGGCAACCAAGACAAGACATGCC
        | ||   ||| || |   |         |  |  |  | | |||  |  | | |  || ||| |  |||||   ||     | |      | |  | | |  | ||||||||    |||||||  |||||||| | ||||| ||    || ||||| |||||||| ||||||||||| |||||  ||||||||||||| ||||||||||| ||||||||||
gtatgccagcacacacgcaaacctgggcataaaacgtcacatatatatgataaccaagctgtgatagaaaattatgtgacattgaagtatggcatgcatgataactggttactttgtttccctgtgcagACTCTTCATTCCTTGAAAGGTCACTTTGATTACTCGTTTGCATCAGCTTGGAGCCCAGATGGCAGAACATTTGCTACTGGCAACCAAGATAAGACATGCC
















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|76290624|gb|DV030192.1|DV030192
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|37401261|gb|CF637993.1|CF637993
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|211395427|gb|FL283717.1|FL283717
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|211395430|gb|FL283720.1|FL283720
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATCCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|22472113|gb|BU036593.1|BU036593
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|60336793|gb|DN203766.1|DN203766
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|78544498|gb|DV621996.1|DV621996
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|21987570|gb|BQ779098.1|BQ779098
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|60357769|gb|DN224742.1|DN224742
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|166469418|gb|EG283859.1|EG283859
EST:     GATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: GATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|6827520|gb|AW331163.1|AW331163
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|211395428|gb|FL283718.1|FL283718
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|78178962|gb|DV549335.1|DV549335
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|37361241|gb|CF602530.1|CF602530
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|60341652|gb|DN208625.1|DN208625
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|71304856|gb|DR788543.1|DR788543
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
EST: gi|50334469|gb|CO529595.1|CO529595
EST:     TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAG                         ACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG
genomic: TTGTGGGTGATGATCCTGATGGTCTACTTATTGATGCAAACTCTGGAAAGgtaccatcgc ... ctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgtgatgatgtgaattaggtcatttcaccatttgattttgtttctggatgcagACAGTTCATTCCATAAAAGGACATCGGGACTACTCATTTGCATCGGCTTGGAGCCCTGATGGGCGAACATTTGCTACCGGCAACCAAGACAAGACATGCC
                               atttgat  putative branch site (score: 5)
                                     ttttgtttct  CT-rich tract
                               atttgattttgttt  TA-rich tract