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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcatcaactcatcatttggtggaaggctatacaagtggaccgcatgttgcttactaatgttgagttagttgactgactcatctgtatttaccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCTAGCATTGCCG

Basic information

species Zea mays
transcript GRMZM2G178958_T01
intron # 7
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|76291679|gb|DV031247.1|DV031247
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|26557845|gb|CA830080.1|CA830080
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|22714950|gb|BU197547.1|BU197547
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGGTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTTGCGTTGTCGCACTCGGGCC
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTT-GCGTTGTCGCACTCGGGCC
EST: gi|67022782|gb|CO451531.1|CO451531
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCGACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|71596246|gb|DR906997.1|DR906997
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCGACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|149026811|gb|EE046171.2|EE046171
EST:     GCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: GCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|116828289|gb|EC856475.1|EC856475
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCGACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|211121580|gb|FL034199.1|FL034199
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|211121581|gb|FL034200.1|FL034200
EST:     TTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCKTTGTCGCACTCGGGCCT
genomic: TTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|148948295|gb|EC893812.2|EC893812
EST:     GCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: GCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|22472974|gb|BU037454.1|BU037454
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|76291680|gb|DV031248.1|DV031248
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGGCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|71431472|gb|DR812522.1|DR812522
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|71431471|gb|DR812521.1|DR812521
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|5343060|gb|AI795470.1|AI795470
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|78121907|gb|DV540291.1|DV540291
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|71435919|gb|DR816969.1|DR816969
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|110970954|gb|EE190854.1|EE190854
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|21843359|gb|BQ703940.1|BQ703940
EST:     TAACACTTGCTGATGCTTTGGTCTATGTTTTCAACCAAGGTGTTGAAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
EST: gi|5928970|gb|AW056262.1|AW056262
EST:     TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGGAAAG                         ATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT
genomic: TAACACTTGCTGATGCTTTGGTCTATGCTTGCAACCAAGGTGTTGAAAAGgtaatgaagc ... ccaattgcagATTATTGATTTGGCAACGCTGACCGGCGCTTGCGTTGTCGCACTCGGGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

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

- - - - - -tcatttg
- - - - - - - - - - - - - - - - - - - - - - tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - atgttga