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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctaaaattcacagctgtctggtctctatctacttctgttccatgtatatagtggcaataccgataagatgcaaaaaacctatagtttgactcgttttcttttaccttttgttacagGATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAG

Basic information

species Zea mays
transcript GRMZM2G139360_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139360_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os08g34050.1 (Oryza sativa), 3'ss of exon 10
gtatgctaaaattcacagctgtctggtc-------tctatctacttctgttccatgtatatagtggcaataccgataagatgcaaaaaacctatagtttgactcgttttcttttaccttttgttacagGATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAG
||| |||||| |||| ||   | |  ||       | |  |||||| |||||||  || |   ||| |  ||   | ||  |   | | |||||  |||        || || ||| ||   ||||||||  |  | ||| |||||||||| || |||||||| |||||||||||| | |||||||| |||||||| ||||||||||||
gtaagctaaacttcagagtgatttcttcatgactttttggctacttttgttccagataca-gctggaagcac--gtgagtcg---agagcctatgatttag-
















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|78543961|gb|DV621459.1|DV621459
EST:     TAAAGAGTAAGGGATTTTGTGTGGTTTGTGTTGCAGAAGCTGCTGGACAA                         GATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTG
genomic: TAAAGAGTAAGGGATTTTGTGTGGTTTGTGTTGCAGAAGCTGCTGGACAAgtatgctaaa ... tttgttacagGATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTG
EST: gi|86471567|gb|DY237937.1|DY237937
EST:     TAAAGAGTAAGGGATTTTGTGTGGTTTGTGTTGCAGAAGCTGCTGGACAA                         GATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTG
genomic: TAAAGAGTAAGGGATTTTGTGTGGTTTGTGTTGCAGAAGCTGCTGGACAAgtatgctaaa ... tttgttacagGATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTG
EST: gi|60401595|gb|DN234402.1|DN234402
EST:     TAAAGAGTAAGGGATTTTGTGTGGTTTGTGTTGCAGAAGCTGCTGGACAA                         GATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTG
genomic: TAAAGAGTAAGGGATTTTGTGTGGTTTGTGTTGCAGAAGCTGCTGGACAAgtatgctaaa ... tttgttacagGATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTG
EST: gi|60394870|gb|DN227739.1|DN227739
EST:     TAAAGAGTAAGGGATTTTGTGTGGTTTGTGTTGCAGAAGCTGCTGGACAA                         GATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTG
genomic: TAAAGAGTAAGGGATTTTGTGTGGTTTGTGTTGCAGAAGCTGCTGGACAAgtatgctaaa ... tttgttacagGATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTG
EST: gi|71756772|gb|DR954709.1|DR954709
EST:     TAAAGAGTAAGGGATTTTGTGTGGTTTGTGTTGCAGAAGCTGCTGGACAA                         GATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTG
genomic: TAAAGAGTAAGGGATTTTGTGTGGTTTGTGTTGCAGAAGCTGCTGGACAAgtatgctaaa ... tttgttacagGATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataagatgcaaaaaacctatagtttgactcgttttcttttaccttttgttacagGATCTACTCCAAGAATCAGGTGCGACTGATGCATCAGGAAATGTGATATTGAGTGACATTGGTGTTCACATGCAACAGAAG
                      gtttgac  putative branch site (score: 4)
                            ctcgttttcttttacc  CT-rich tract
                                ttttctttta  TA-rich tract