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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagagcccaatcatgcgatcgtgttaaatttaacagttttgatttgatggaagcccaatccatttgttttgttttttttcaatctcgttttctgcactgatttgttcccatgattcagGTGTTCTGACAGGTAAGTACACTCCAGAAAACCCCCCTACTGGTCCTCGAGCAAACACATACACCCCTGAGTTCCTCGCCAAG

Basic information

species Zea mays
transcript GRMZM2G111954_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G111954_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os07g04990.2 (Oryza sativa), 3'ss of exon 7
gtaaagagcccaatcatgcgatcgtgttaaatttaacagttttgatttgatggaagcccaatccatttgttttgttttttttcaatctcgttttctgcactgatttgttcccatgattcagGTGTTCTGACAGGTAAGTACACTCCAGAAAACCCCCCTACTGGTCCTCGAGCAAACACATACACCCCTGAGTTCCTCGCCAAG-----------------
                  |  | || ||   || | |  |  | |     | |      |||    |  |          |     |    ||  || | ||| |  || || |  ||||||||||||| |||| || |||||||||||||| || ||||| |||||||||||||||||||| ||||||||||||||| |||||                 
------------------cattggtttt---ttgatcgctaataaaccatttggcatataattagctcttggccaaccgatggggcccttgttcttgtaatgactcatttccgttgttcagGTGTTCTGTCAGGAAAATACACTCCAGAAAAACCTCCTACCGGTCCTCGAGCAAACACATATACCCCTGAGTTCCTCACCAAGGTTATATTAGTACATAT

upper sequence: GRMZM2G111954_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os07g04990.1 (Oryza sativa), 3'ss of exon 7
gtaaagagcccaatcatgcgatcgtgttaaatttaacagttttgatttgatggaagcccaatccatttgttttgttttttttcaatctcgttttctgcactgatttgttcccatgattcagGTGTTCTGACAGGTAAGTACACTCCAGAAAACCCCCCTACTGGTCCTCGAGCAAACACATACACCCCTGAGTTCCTCGCCAAG
                  |  | || ||   || | |  |  | |     | |      |||    |  |          |     |    ||  || | ||| |  || || |  ||||||||||||| |||| || |||||||||||||| || ||||| |||||||||||||||||||| ||||||||||||||| |||||
------------------cattggtttt---ttgatcgctaataaaccatttggcatataattagctcttggccaaccgatggggcccttgttcttgtaatgactcatttccgttgttcagGTGTTCTGTCAGGAAAATACACTCCAGAAAAACCTCCTACCGGTCCTCGAGCAAACACATATACCCCTGAGTTCCTCACCAAG
















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|148936270|gb|EC880348.2|EC880348
EST:     ATGTGATGAGCTCGGCATCACCTTGATTGCTTATTCCCCGATAGCGCAAG                         GTGTTCTGACAGGTAAGTACACTCCAGAAAACCCCCCTACTGGTCCTCGAG
genomic: ATGTGATGAGCTCGGCATCACCTTGATTGCTTATTCCCCGATAGCGCAAGgtaaagagcc ... catgattcagGTGTTCTGACAGGTAAGTACACTCCAGAAAACCCCCCTACTGGTCCTCGAG
EST: gi|67034494|gb|CO463044.1|CO463044
EST:     CTGTGATGAGCTCGGCATCACCTTGATTGCTTATTCCCCGATAGCGCAAG                         GTGTTCTGACAGGTAAGTACACTCCAGAAAACCCCCCTACTGGTCCTCGAG
genomic: ATGTGATGAGCTCGGCATCACCTTGATTGCTTATTCCCCGATAGCGCAAGgtaaagagcc ... catgattcagGTGTTCTGACAGGTAAGTACACTCCAGAAAACCCCCCTACTGGTCCTCGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttttgttttttttcaatctcgttttctgcactgatttgttcccatgattcagGTGTTCTGACAGGTAAGTACACTCCAGAAAACCCCCCTACTGGTCCTCGAGCAAACACATACACCCCTGAGTTCCTCGCCAAG
                               cactgat  putative branch site (score: 3)
                                     tttgttccc  CT-rich tract
     ttgttttttttcaat  TA-rich tract