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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttatattaaataagctagctctttcagtttttccctttagatctagcttttcctaggtactctatatacattcgaaacaattcatattccactcaatggcgatgataatgcattcatttctgtttgtttttcagCATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGTACAAGTGATCATCTTTTTAGCGGGAGCCGTGATGGTACCTTGAAAAGAT

Basic information

species Zea mays
transcript GRMZM2G167999_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G167999_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 3'ss of exon 2
gtatgtttatattaaataagctagctctttcagtttttccctttagatctagcttttcctaggtactc---tatatac-----attcgaaacaattcatattccactcaatggcgatgataatgcattcatttctgtttgtttttcagCATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGTACAAGTGATCATCTTTTTAGCGGGAGCCGTGATGGTACCTTGAAAAGAT
                             ||||||   |  |  ||| |||||| | |  ||   | |   |  || |     |||| ||| ||||||| |||    |||  |   | || ||||||||  || ||| | |||||||||||||||| |||||||| |||||| | || ||| |||  || |  | | |||| |||||| ||||||||| |||||| || |||||||||||||| || |
----------------------------gtcagttccact-tccagaactagctatcctcagaatcgcggatgcatccagttgattcaaaagaattcattttcagtgcaaatgtc-tcatcatgcattccattgtgtctatttttcagCATTGTGCTGGGATCAACTGCTTGTCATACCTAAATGCCTCTACTTCTGGTACGAGTGATTATCTTTTTACCGGGAGTCGGGATGGTACCTTGAAGAGGT
















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|211344544|gb|FL091812.1|FL091812
EST:     GAAAAGAGAAGCGCTTCACATATGTACTCAATGATGCTGATGATAAAAAG                         CATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGT
genomic: GAAAAGAGAAGCGCTTCACATATGTACTCAATGATGCTGATGATAAAAAGgtatgtttat ... tgtttttcagCATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGT
EST: gi|22489370|gb|BU049293.1|BU049293
EST:     GAAAAGAGAAGCGCTTCACATATGTACTCAATGATGCTGATGATAAAAAG                         CATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGT
genomic: GAAAAGAGAAGCGCTTCACATATGTACTCAATGATGCTGATGATAAAAAGgtatgtttat ... tgtttttcagCATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGT
EST: gi|18384200|gb|BM417399.1|BM417399
EST:     GAAAAGAGAAGCGCTTCACATATGTACTCAATGATGCTGATGATAAAAAG                         CATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGT
genomic: GAAAAGAGAAGCGCTTCACATATGTACTCAATGATGCTGATGATAAAAAGgtatgtttat ... tgtttttcagCATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGT
EST: gi|88758366|gb|DY542735.1|DY542735
EST:     GAAAAGAGAAGCGCTTCACATATGTACTCAATGATGCTGATGATAAAAAG                         CATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGT
genomic: GAAAAGAGAAGCGCTTCACATATGTACTCAATGATGCTGATGATAAAAAGgtatgtttat ... tgtttttcagCATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGT
EST: gi|60397544|gb|DN230360.1|DN230360
EST:     GAAAAGAGAAGCGCTTCACATATGTACTCAATGATGCTGATGATAAAAAG                         CATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGT
genomic: GAAAAGAGAAGCGCTTCACATATGTACTCAATGATGCTGATGATAAAAAGgtatgtttat ... tgtttttcagCATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcatattccactcaatggcgatgataatgcattcatttctgtttgtttttcagCATTGTGCGGGGATCAATTGCTTGGCTTATCTAGATGGTTCCATATTTAGTACAAGTGATCATCTTTTTAGCGGGAGCCGTGATGGTACCTTGAAAAGAT
                                     tttctgtttgtttttc  CT-rich tract
                                           tttgttttt  TA-rich tract