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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctcgttttgtctctgatagacctctctattgttttgttaatgttgttgcgcttcttaatttttgttcatgttctgtagGCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAATAGCGTGGTTTATGCAATTCAG

Basic information

species Zea mays
transcript GRMZM2G174286_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174286_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os10g39220.1 (Oryza sativa), 3'ss of exon 4
---gtacctcgttttgtctctgatagacctctctattgttttgttaatgttgtt-gcgcttcttaatttttgttcatgttctgtagGCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAATAGCGTGGTTTATGCAATTCAG
    ||    | ||||    |  |||  | || |    |||  | | ||   || || | || |||||| ||    | | |  ||||| |||||||||||||||||||||||||| |||||||||||||||||||||   ||| | ||||||||||||
gtgctaggctggtttgatctttgtagttccctgtgacatttcatcagtgcctttagcacctcctaatttgtgaaattttccactagGCGCGTGCAATGTCCACTGATGGGCTTAGGCCAACTTTCTATTGGATCAATGCTGTGATCTATGCAATTCAG
















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|93284395|gb|EB676659.1|EB676659
EST:     TATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG                         GCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
genomic: TATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtacctcgtt ... tgttctgtagGCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
EST: gi|149112907|gb|EE295706.2|EE295706
EST:     TGCTCTTCGGGGCAGAGATTTATTATCAG                         GCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
genomic: TGCTCTTCTGGGCAGAGATTTATTATCAGgtacctcgtt ... tgttctgtagGCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
EST: gi|71300276|gb|DR786208.1|DR786208
EST:     GGCAGAGATTTATTATCAG                         GCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
genomic: GGCAGAGATTTATTATCAGgtacctcgtt ... tgttctgtagGCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
EST: gi|67017793|gb|CO446542.1|CO446542
EST:     TCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAG                         GCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT
genomic: TCACAACATATGCACTTCTAGTGCTCTTCTGGGCAGAGATTTATTATCAGgtacctcgtt ... tgttctgtagGCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctattgttttgttaatgttgttgcgcttcttaatttttgttcatgttctgtagGCACGTGCAATGTCCACTGATGGGCTTAGACCAACTTTCTATTGGATCAATAGCGTGGTTTATGCAATTCAG
                             tcttaat  putative branch site (score: 3)
                            ttcttaatttttgtt  TA-rich tract