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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttacttctccattctcctgattgttttttagcagtagttctaatttgattttgattctgcagtatggtcatgttagttccattcccagaaaacttagtttgttaattaactgcattattcatcagGTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG

Basic information

species Zea mays
transcript GRMZM2G094497_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 4
---gttacttctccattctcctgattgttttttagcagtagttctaatttgattttgattctgcagtatggtcatgttagttccatt-cccagaaaactta-gtttgttaattaactgcattattcatcagGTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG
    | | || || ||| |  ||| | | ||||     | | |  |  |||  ||    | |||| |      ||| ||||||||||  |||||  ||||| ||||  | | | |||   ||  |  ||||||||||||||| ||||| ||||||||||||||||| || || |||||||| ||||| |||
gttatcatttttctatttttatgaatatctttt-----ttgcttgagattgtattcagatttgcatttaccctatgatagttccattatccagagcacttacgttttattactgacttacttgattttcagGTCTTTGAAGGCACTTCAGGAATAGACAACAAATATACCACTGTGCAGTTCACAGGAGAG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 4
gttacttctccattctcctgattgttttttagcagtagttctaatttgattt--tgattctgcagtatggtcatgttagttccattcccagaaaacttagtttgttaattaactgcattattcatcagGTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG
               |   |||||||||||  |  |  | ||      |||   | || ||  |  |    | |  |   || | || |        |   ||  | || | ||  |   ||  |||||| ||||||||||| |||||||| |||||||| |  ||||||||||| || ||||| |||
-------------gtttaggattgttttttgtccatgttacttcaaacattgaataatacttaaacacaaacttcgtgaatctagtcacttcttcagtgacttacttatca-cttaagggtt--tcagGTTTTTGAAGGAACATCTGGAATTGACAACAAGTTTACAACCGTGCAATTCACAGGAGAG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 4
gttacttctccattctcctgattgttttttagcagtagttctaatttgattttgattctgcagtatggtcatgttagttccattcccagaaaacttagtttgttaattaactgcatta--ttcatcagGTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG
                 ||| |   |||| ||   || |  | |  || | |  | |    |||||        || || |  ||  |      |||| ||| | |||  |||  |||  |||  ||||| |||||||| ||||||||||| ||||||||||||||||||||||| ||||| || |||
-----------------ctgctaccttttaagttttaatctttagatggtatatagttaatagtata-------taatttctctcttat----tttagcttgatcattttctgttttaatttccccagGTTTTTGAAGGCACTTCTGGAATTGACAACAAATACACAACCGTGCAATTTACTGGGGAG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 3'ss of exon 4
gttacttctccattctcctgattgttttttagcagtagttctaatttgattttgattctgcagtatggtcatgttagttccattcccagaaaacttagtttgttaattaactgcattattcatcagGTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG
                       || |||| ||  |||| ||  ||    | |  || |  || ||  |  | ||  ||   || | |  |||  || |||  | |     ||   | ||   ||||| |||||||||||||||||||| ||||||||||||||||| || || |||||||| |||
-----------------------gtgttttggct-tagtccttcttgtcatattgttatataggatttttttattttttgtttttcaattaaa--tactttactcagcttatgttgttttggccagGTTTTTGAAGGAACTTCTGGAATTGACAACAAATACACAACTGTTCAATTTACAGGGGAG

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|31628299|gb|CD526540.1|CD526540
EST:     ATCGCCGTGGTCAAGTCCTGGAAGTTGATGGCGAAAAAGCTGTTGTGCAG                         GTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCG
genomic: ATCGCCGTGGTCAAGTCCTGGAAGTTGATGGCGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCG
EST: gi|32929168|gb|CF033980.1|CF033980
EST:     ATCGCCGTGGTCAAGTCCTGNAAGTTGATGGCGAAAAAGCTGTTGTGCAG                         GTCTNTGAAGGAACTTCTGGAATAGACAACAAATACACANCCGTGCAG-TT
genomic: ATCGCCGTGGTCAAGTCCTGGAAGTTGATGGCGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|32838409|gb|CD978087.1|CD978087
EST:     ATCGCCGTGGTCAAGTCCTGGAAGTTGATGGCGAAAAAGCTGTTGTGCAG                         GTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: ATCGCCGTGGTCAAGTCCTGGAAGTTGATGGCGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|194716810|gb|FK933969.1|FK933969
EST:     ATCGCCGTGGTCAGGTCCTGGAAGTTGATGGCGAAAAAGCTGTTGTGCAG                         GTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACTGTGCAGTTT
genomic: ATCGCCGTGGTCAAGTCCTGGAAGTTGATGGCGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
EST: gi|33102277|gb|CF062237.1|CF062237
EST:     ATCGCCGTGGTCAAGTCCTGGAAGTTGATGGCGAAAAAGCTGTTGTGCAG                         GTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT
genomic: ATCGCCGTGGTCAAGTCCTGGAAGTTGATGGCGAAAAAGCTGTTGTGCAGgttacttctc ... tattcatcagGTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttagttccattcccagaaaacttagtttgttaattaactgcattattcatcagGTCTTTGAAGGAACTTCTGGAATAGACAACAAATACACAACCGTGCAGTTTACAGGCGAG
                                 aattaac  putative branch site (score: 2)
                  aaaacttagtttgtta  TA-rich tract