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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGGATTTATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaacctgcctctctgttacgatgaacaagtttgtacttagttcttactgggatctggatcaaatagtgtcaactgctttctcatgttagtaacacagtgttttctcgcacgtgtag

Basic information

species Zea mays
transcript GRMZM2G147882_T04
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G147882_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g09300.2 (Oryza sativa), 5'ss of exon 8
CGGATTTATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaacctgcctctctgt-tacgatgaacaagtttgtacttagttcttactggga---tctggatcaaatagtgt-------caactgctttctcatgttagtaacacagtgttttct-cgcacgtgtag
 || ||||| ||||| |||||||| ||||||||| ||||||||||| |  ||||||||| || ||| |   | ||      | | |        |  |  ||  |  |||   | |   ||| | |   || || |        ||||| |        ||| ||  | |  | | ||| |  || |||||
AGGTTTTATTGTCAATCTTGGCGATATGCTCGAACGGTGGAGTAACTGTATTTTCAGgttggccaaaccatcccttaaagcatgttctttggagtcattgtttttctttaggagaaccatcttggtgtcattgttttttttactaactgttactgttctttattataatacggctgtctgcatacctgtag
















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|78077655|gb|DV506089.1|DV506089
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32925957|gb|CF030769.1|CF030769
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926415|gb|CF031227.1|CF031227
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926466|gb|CF031278.1|CF031278
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|74241069|gb|DT648983.1|DT648983
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926635|gb|CF031447.1|CF031447
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926849|gb|CF031661.1|CF031661
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926430|gb|CF031242.1|CF031242
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926417|gb|CF031229.1|CF031229
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32925395|gb|CF030207.1|CF030207
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGACCGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|211415426|gb|FL477512.1|FL477512
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|211525267|gb|FL432922.1|FL432922
EST:     CTTGGCGACATGCTCGAAAGGTGGAGGTAACGGCGTTTTCAG                         GTCCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
genomic: CTTGGCGACATGCTCGAAAGGTGGA-GTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGT-CAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|71758494|gb|DR956431.1|DR956431
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926166|gb|CF030978.1|CF030978
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926025|gb|CF030837.1|CF030837
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|71299018|gb|DR785501.1|DR785501
EST:     TTCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32925152|gb|CF029964.1|CF029964
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|71429425|gb|DR810475.1|DR810475
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|76287314|gb|DV026882.1|DV026882
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926219|gb|CF031031.1|CF031031
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|78078283|gb|DV506698.1|DV506698
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32858735|gb|CD998416.1|CD998416
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926072|gb|CF030884.1|CF030884
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926162|gb|CF030974.1|CF030974
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32926197|gb|CF031009.1|CF031009
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32925587|gb|CF030399.1|CF030399
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32925272|gb|CF030084.1|CF030084
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32925426|gb|CF030238.1|CF030238
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG
EST: gi|32925266|gb|CF030078.1|CF030078
EST:     ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAG                         GTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGTTACTCG
genomic: ATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaac ... gcacgtgtagGTCAACCTTACATCGAGTGGTCCTAGATGGGCGAGAACGCTACTCG

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGGATTTATCGTCAACCTTGGCGACATGCTCGAAAGGTGGAGTAACGGCGTTTTCAGgtaggacaacctgcctctctgttacgatgaacaagtttgtacttagttcttactgggatctggatcaaatagtgtcaactgctttctcatgttagtaacacagtgttttctcgcacgtgtag

- - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - GTGGAG