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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtgccgcctcggccgctccctccctagtccctacctacttagctcgctgcttaaaccctaagcgccacactgcactgcatgaaagaatcctgggctaacactcttcatccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCGAGCATGTCGTCGTCCGCGCTGGTCTGCTTATCGGCGCCGCCGCCGGTGC

Basic information

species Zea mays
transcript GRMZM2G123140_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G123140_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os10g42490.1 (Oryza sativa), 3'ss of exon 5
gttggtgccgcctcggccgctccctccctagtccctacctacttagctcgctgcttaaaccctaagcgccacactgcactgcatgaaagaatcctgggctaacactcttcatccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGC------CGACAGCCGAGCATGTCGTCGTCCGCGCTGGTCTGCTTATCGGCGCCGCCGCCGGTGC
                              ||| ||| || | ||   | || | ||  || |     || || | | |  ||   || | ||||    ||  |  |||| |   | ||||| ||||||||||| |||||||| ||||| ||||||||||||      || ||||||    ||||| |||| || |||  |||| | |||||||||||||      
------------------------------gtcgctagctccctaaaaccctaccta--ccattcattcc-caattcccaacacataatactcctcctata-tatgcttcctggctgcagCTTGACCGCTTGGCCTGCATCGCCACCCGCTACGGCGGCGGCGGCGGACGGCAGCCGGTGCTGTCGACGTCGGCCCTGAGCTGCATCTCGGCGCCGCCGC------
















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|78084627|gb|DV513020.1|DV513020
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|50324011|gb|CO519137.1|CO519137
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|71764164|gb|DR962101.1|DR962101
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|93281069|gb|EB673333.1|EB673333
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|78074346|gb|DV502780.1|DV502780
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|148938577|gb|EC882901.2|EC882901
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|50330271|gb|CO525397.1|CO525397
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|86472399|gb|DY238769.1|DY238769
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|89250163|gb|DY621949.1|DY621949
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|78083048|gb|DV511441.1|DV511441
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|50322570|gb|CO517696.1|CO517696
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|50323712|gb|CO518838.1|CO518838
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|93013152|gb|EB638672.1|EB638672
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|76294065|gb|DV033633.1|DV033633
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|76291558|gb|DV031126.1|DV031126
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|93013982|gb|EB639502.1|EB639502
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGGTACGGCGGCGGCCGACAGCC
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCC-GGTACGGCGGCGGCCGACAGCC
EST: gi|88754724|gb|DY538865.1|DY538865
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|88756590|gb|DY540731.1|DY540731
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|50335383|gb|CO530509.1|CO530509
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|76922345|gb|DV168961.1|DV168961
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|149087104|gb|EE176643.2|EE176643
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|148953385|gb|EE152879.2|EE152879
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|148954731|gb|EC900184.2|EC900184
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|33467199|gb|CF244248.1|CF244248
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|71426041|gb|DR807091.1|DR807091
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|50333731|gb|CO528857.1|CO528857
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|71758544|gb|DR956481.1|DR956481
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|38687296|gb|CK144327.1|CK144327
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
EST: gi|71317347|gb|DR795368.1|DR795368
EST:     CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAG                         CTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG
genomic: CGTACGAGGAGCAGCAGCTCCGCATCGAAAACGCTAGGCTCAAGGACGAGgttggtgccg ... atccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgccacactgcactgcatgaaagaatcctgggctaacactcttcatccatccagCTCGACCGCTTGGCGTGCATCGCGACCCGGTACGGCGGCGGCCGACAGCCGAGCATGTCGTCGTCCGCGCTGGTCTGCTTATCGGCGCCGCCGCCGGTGC
                               ggctaac  putative branch site (score: 2)
                                       ctcttcatccatcc  CT-rich tract
                    aaagaat  TA-rich tract