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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttcgatatggcaccgactcacatgaaagctaccatattgtgtttcgtgcatctattaccgagtaagatgcatccataacttaatacatcctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGGCTCCTGAAAACTCAGTTGCTTCTGCTGCTCTGGAACAACTCAGTGCCGC

Basic information

species Zea mays
transcript GRMZM5G870572_T03
intron # 4
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|211184536|gb|FL153191.1|FL153191
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
EST: gi|211184539|gb|FL153194.1|FL153194
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
EST: gi|211184530|gb|FL153185.1|FL153185
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
EST: gi|148959670|gb|EC905590.2|EC905590
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
EST: gi|211184532|gb|FL153187.1|FL153187
EST:     GAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
genomic: GAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
EST: gi|211184534|gb|FL153189.1|FL153189
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
EST: gi|211184537|gb|FL153192.1|FL153192
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTANACCAACTGTGG
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
EST: gi|211184535|gb|FL153190.1|FL153190
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
EST: gi|211184538|gb|FL153193.1|FL153193
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
EST: gi|89756532|gb|DY686536.1|DY686536
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCT
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCT
EST: gi|31356392|gb|CD440749.1|CD440749
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCTCTGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
EST: gi|211184531|gb|FL153186.1|FL153186
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
EST: gi|211184529|gb|FL153184.1|FL153184
EST:     ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAG                         CTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG
genomic: ATTTGAGTTTGACAATGTTGGTAACCGTGACCAATGTCGAGACTTTGTAGgtaatgttcg ... ctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtgcatctattaccgagtaagatgcatccataacttaatacatcctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGGCTCCTGAAAACTCAGTTGCTTCTGCTGCTCTGGAACAACTCAGTGCCGC
                                         catcctcctc  CT-rich tract
                              ataacttaatacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcgatatggcaccgactcacatgaaagctaccatattgtgtttcgtgcatctattaccgagtaagatgcatccataacttaatacatcctcctcgcagCTAGGGTTTTAGGCAAACATCAAGGGATAGTGCCTCCTAGACCAACTGTGGCTCCTGAAAACTCAGTTGCTTCTGCTGCTCTGGAACAACTCAGTGCCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT