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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagctaactgatctccatcaccatggaattcaatactagaaaaactttgctgacctttttattttctgcgtttgttctggtttactggactctctatgtttatgtgtacacaccatttctgacttgcagGTTTTATTGTTTATTCATGCGTGGCAGTGGCCTGCGTTCTTTTTTTGATATTTCGGGTTGTTGAGCGCTCTGGGCACAGATTGATGCTTGTTTACATAGC

Basic information

species Zea mays
transcript GRMZM2G092991_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G092991_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g29510.4 (Oryza sativa), 3'ss of exon 5
gtagctaactgatctccatcaccatggaattcaatactagaaaaactttgctgacctttttattttctgcgtttgttctggtttactggactctctatgtttatgtgtacacaccatttctgacttgcagGTTTTATTGTTTATTCATGCGTGGCAGTGGCCTGCGTTCTTTTTTTGATATTTCGGGTTGTTGAGCGCTCTGGGCACAGATTGATGCTTGTTTACATAGC
                  |   | ||  |     ||||      | | |        || ||      |   || || | |  |  |     | | | ||||   | |    |  | |||||     |||||||||||||||||||||| ||||| ||||  |  ||||| |||||||| ||  |||||| ||| || ||||| |||||   |||||||||||| || ||
------------------ttctcttgcgagcatttactt-----attctctcacttgttctaagaatggaacttcttatagaatgttaa--ccacaaggttttgttatctggataacttctg-----cagGTTTTATTGTTTATTCATGTGTGGCTGTGGTGTCTGTTCTATTTTTGATTTTCTGGGTTGCTGAACGTTCTGGACACAGGAAGATGCTTGTTTATATTGC
















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|211454415|gb|FL061604.1|FL061604
EST:     GAGAAAAATTGATTCTATGAAGGAAATATGGCATCTTGCAACACAGCCAG                         GTYTTATTGTTTATTCATGCGTGGCAGTGG
genomic: GAGAAAAATTGATTCTATGAAGGAAATATGGCATCTTGCAACACAGCCAGgtagctaact ... tgacttgcagGTTTTATTGTTTATTCATGCGTGGCAGTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctggtttactggactctctatgtttatgtgtacacaccatttctgacttgcagGTTTTATTGTTTATTCATGCGTGGCAGTGGCCTGCGTTCTTTTTTTGATATTTCGGGTTGTTGAGCGCTCTGGGCACAGATTGATGCTTGTTTACATAGC
                                          ttctgac  putative branch site (score: 2)
                                      ccatttct  CT-rich tract
                    tatgtttat  TA-rich tract