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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggggtaattttactttgattcttcgtatatataactgtttggaggtaaaaaccacccagcaaataatgatatgtgctgtgaaacagTCTGTCACATACATCGCTGAACATGTGGTTGGAACTGGTTCTTTTGGGGTTGTGTATCAG

Basic information

species Zea mays
transcript GRMZM2G138676_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G138676_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g62500.1 (Oryza sativa), 3'ss of exon 3
gtgggggtaattttactttgattcttcgtatatataactgtttggaggtaaaaaccacccagcaaataatgatatgtgctgtgaaacagTCTGTCACATACATCGCTGAACATGTGGTTGGAACTGGTTCTTTTGGGGTTGTGTATCAG
||     || |||  |||| || |||   || | | | |||||||   | ||| | |  | |  ||    | |||| |   || ||||||||||||| || || ||||| |||||||| ||||||||||||||||||||||| ||||||
gtaaaaatagtttcgctttcatccttgcaatttgtga-tgtttggccatgaaa-caatgctgataaagtggttatg-gtaatggaacagTCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTTCTTTTGGGGTTGTATATCAG

upper sequence: GRMZM2G138676_T02 (Zea mays), 3'ss of exon 3
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 2
---------------------------------gtgggggtaattttactttgattcttcgtat--atataactgtttggaggtaaaaaccacccagc--aaataatgatatgtgctgtgaaacagTCTGTCACATACATCGCTGAACATGTGGTTGGAACTGGTTCTTTTGGGGTTGTGTATCAG
                                  | |  || | || || |  ||  ||  | |  |  |||   | |      | ||   |   |      |  |||  ||||   |     ||| |||| |  ||||| || ||||||||||||||||||||||||||||| ||||| |  || 
gtaggaagcaaattagtttgtaagattacaatatttgacgtcaattaacataaatcattaatgtcaaggtaaacatcttacataagaatatatatattttggaacatgtcatgtttggatttgcagACTGTTAGTTACATAGCAGAACATGTGGTTGGAACTGGTTCTTTTGGTGTTGTTTTCCAA
















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|5268846|gb|AI770810.1|AI770810
EST:     GTCATGTAATAGCGACTACTGTTCACGGGCGCAACGGCCTGCCTAAACAG                         TCTGTCACATACATCGCTGAACATGTGGTTGGAACTGGTTCTTTTGGGGTT
genomic: GTCATGTAATAGCGACTACTGTTCACGGGCGCAACGGCCTGCCTAAACAGgtgggggtaa ... tgtgaaacagTCTGTCACATACATCGCTGAACATGTGGTTGGAACTGGTTCTTTTGGGGTT
EST: gi|6095487|gb|AW120154.1|AW120154
EST:     GTCATGTAATAGCGACTACTGTTCACGGGCGCAACGGCCTGCCTAAACAG                         TCTGTCACATACATCGCTGAACATGTGGTTGGAACTGGTTCTTTTGGGGTT
genomic: GTCATGTAATAGCGACTACTGTTCACGGGCGCAACGGCCTGCCTAAACAGgtgggggtaa ... tgtgaaacagTCTGTCACATACATCGCTGAACATGTGGTTGGAACTGGTTCTTTTGGGGTT
EST: gi|211457740|gb|FL227180.1|FL227180
EST:     GTCATGTAATAGCGACTACTGTTCACGGGCGCAACGGCCTGCCTAAACAG                         TCTGTCACATACATCGCTGAACATGTGGT
genomic: GTCATGTAATAGCGACTACTGTTCACGGGCGCAACGGCCTGCCTAAACAGgtgggggtaa ... tgtgaaacagTCTGTCACATACATCGCTGAACATGTGGT
EST: gi|71322558|gb|DR797956.1|DR797956
EST:     GTCATGTAATAGCGACTACTGTTCACGGGCGCAACGGCCTGCCTAAACAG                         TCTGTCACATACATCGCTGAACATGTGGTTGGAACTGGTTCTTTTGGGGTT
genomic: GTCATGTAATAGCGACTACTGTTCACGGGCGCAACGGCCTGCCTAAACAGgtgggggtaa ... tgtgaaacagTCTGTCACATACATCGCTGAACATGTGGTTGGAACTGGTTCTTTTGGGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taactgtttggaggtaaaaaccacccagcaaataatgatatgtgctgtgaaacagTCTGTCACATACATCGCTGAACATGTGGTTGGAACTGGTTCTTTTGGGGTTGTGTATCAG
 atataac  putative branch site (score: 3)
                             aaataatgatatgt  TA-rich tract