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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatgcagaatccccccgcccccttttccccacttcttagtttgaattgtaatatttgacatcgtctttggatatgcttatttcttttacagACCTGATGATACCCCGTGGGATGGAG

Basic information

species Zea mays
transcript GRMZM2G110983_T02
intron # 2
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|32807434|gb|CD959668.1|CD959668
EST:     GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGG                         ACCTGATGATACCCCGTGGGATGGAG
genomic: GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGGgtatgatgca ... tcttttacagACCTGATGATACCCCGTGGGATGGAG
EST: gi|32797239|gb|CD949475.1|CD949475
EST:     GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGG                         ACCTGATGATACCCCGTGGGATGGAG
genomic: GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGGgtatgatgca ... tcttttacagACCTGATGATACCCCGTGGGATGGAG
EST: gi|32799894|gb|CD952130.1|CD952130
EST:     GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGG                         ACCTGATGATACCCCGTGGGATGGAG
genomic: GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGGgtatgatgca ... tcttttacagACCTGATGATACCCCGTGGGATGGAG
EST: gi|32807019|gb|CD959253.1|CD959253
EST:     GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGG                         ACCTGATGATACCCCGTGGGATGGAG
genomic: GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGGgtatgatgca ... tcttttacagACCTGATGATACCCCGTGGGATGGAG
EST: gi|211443180|gb|FL376062.1|FL376062
EST:     GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGG                         ACCTGATGATACCCCGTGGGATGGAG
genomic: GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGGgtatgatgca ... tcttttacagACCTGATGATACCCCGTGGGATGGAG
EST: gi|32799116|gb|CD951352.1|CD951352
EST:     GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGG                         ACCTGATGATACCCCGTGGGATGGAG
genomic: GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGGgtatgatgca ... tcttttacagACCTGATGATACCCCGTGGGATGGAG
EST: gi|32798985|gb|CD951221.1|CD951221
EST:     GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGG                         ACCTGATGGTACCCCGTGGGATGGAG
genomic: GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGGgtatgatgca ... tcttttacagACCTGATGATACCCCGTGGGATGGAG
EST: gi|32799638|gb|CD951874.1|CD951874
EST:     GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGG                         ACCTGATGATACCCCGTGGGATGGAG
genomic: GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGGgtatgatgca ... tcttttacagACCTGATGATACCCCGTGGGATGGAG
EST: gi|211312738|gb|FL018802.1|FL018802
EST:     GGCGCCCCGCANGATAACAACATAATGCTGTGGAATGCTGTCATATTTGG                         ACCTGATGATACCCCGTGGGATGGAG
genomic: GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGGgtatgatgca ... tcttttacagACCTGATGATACCCCGTGGGATGGAG
EST: gi|32802786|gb|CD955022.1|CD955022
EST:     GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGG                         ACCTGATGATACCCCGTGGGATGGAG
genomic: GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGGgtatgatgca ... tcttttacagACCTGATGATACCCCGTGGGATGGAG
EST: gi|32809657|gb|CD961891.1|CD961891
EST:     GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTATCATATTTGG                         ACCTGATGATACCCCGTGGGATGGAG
genomic: GGCGCCCCGCAGGATAACAACATAATGCTGTGGAATGCTGTCATATTTGGgtatgatgca ... tcttttacagACCTGATGATACCCCGTGGGATGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtttgaattgtaatatttgacatcgtctttggatatgcttatttcttttacagACCTGATGATACCCCGTGGGATGGAG
                atttgac  putative branch site (score: 4)
                                     tgcttatttctttt  putative PPT
     tgaattgtaatattt  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgatgcagaatccccccgcccccttttccccacttcttagtttgaattgtaatatttgacatcgtctttggatatgcttatttcttttacagACCTGATGATACCCCGTGGGATGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA