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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtactccatatgttggcattggaatggctttcatcttttttggctgtatcatttttcttgcacaattgtgttgcttgtaaactgtgaagagtggaccacatgatgctgactgtttggtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATGATCATATCGACGGCAATCGACGGCTTCAACGTGTTGATGCCTAGCAACA

Basic information

species Zea mays
transcript GRMZM2G458888_T02
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G458888_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os11g03990.1 (Oryza sativa), 3'ss of exon 12
--------------------------gtagtactccatatgttggcattggaatggctttcatcttttttggctgtatcat---ttttcttgcac----aattgtgtt------gcttgtaaactgtgaa-gagtggacc-----acatgatgctgactgtttggtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATGATCATATCGACGGCAATCGACGGCTTCAACGTGTTGATGCCTAGCAACA
                           || | |  |  || ||   ||     ||     |||   || ||    ||  ||   | ||  || ||    |  ||| ||      |     | ||||| |  ||||| |       |  ||||| ||| |||||  ||||  ||||| |||| ||||||||||||| ||||||||||||||||||||||    ||||||||||| ||||||   || || |||||  |||||||||| |||||||
gtactgttaccacacttgttttatgtttacttcctctcattttcatatcattgtgtgcaccattccttgtgtaattaaaatacatgtttgtggacctcgagatgtatttcaaaagtacagacactgttactgagtgaaatcataaatgtgatgttgattgttttatgtg--cagGGCCAGAAAGACTTGAAAGAATTGCACTGGCACCCACAGATACCTAGTATGATCATATCTACGGCAGCTGATGGATTCAATATGTTGATGCCCAGCAACA

upper sequence: GRMZM2G458888_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os12g03822.2 (Oryza sativa), 3'ss of exon 3
--------------------------gtagtactccatatgttggcattggaatggctttcatcttttttggctgtatcat---ttttcttgcac----aattgtgtt------gcttgtaaactgtgaa-gagtggacc-----acatgatgctgactgtttggtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATGATCATATCGACGGCAATCGACGGCTTCAACGTGTTGATGCCTAGCAACA
                           || | |  |  || ||   ||     ||     |||   || ||    ||  ||   | ||  || ||    |  ||| ||      |     | ||||| |  ||||| |       |  ||||| ||| |||||  ||||  ||||| |||| ||||||||||||| |||||||||| |||||||||||    ||||||||||| ||||||   || || |||||  |||||||||| |||||||
gtactgttaccacacttgttttatgtttacttcctctcattttcatatcattgtgttcaccattccttgtgtaattaaaatacatgtttgtggacctcgagatgtatttcaaaagtacagacactgttactgagtgaaatcataaatgtgatgttgattgttttatgtg--cagGGCCAGAAAGACTTGAAAGAATTGCACTGGCATCCACAGATACCTAGTATGATCATATCTACGGCAGCTGATGGATTCAATATGTTGATGCCCAGCAACA
















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|211433222|gb|FL465175.1|FL465175
EST:     AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAG                         GGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
genomic: AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAGgtagtactcc ... gtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
EST: gi|37393369|gb|CF633947.1|CF633947
EST:     AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAG                         GGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
genomic: AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAGgtagtactcc ... gtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
EST: gi|33092801|gb|CF052795.1|CF052795
EST:     AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAG                         GGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
genomic: AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAGgtagtactcc ... gtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
EST: gi|211433223|gb|FL465176.1|FL465176
EST:     AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAG                         GGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
genomic: AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAGgtagtactcc ... gtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
EST: gi|87156090|gb|DY400879.1|DY400879
EST:     AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAG                         GGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
genomic: AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAGgtagtactcc ... gtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
EST: gi|26558492|gb|CA830727.1|CA830727
EST:     AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAG                         GGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
genomic: AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAGgtagtactcc ... gtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
EST: gi|40336456|gb|CK370526.1|CK370526
EST:     AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAG                         GGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
genomic: AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAGgtagtactcc ... gtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
EST: gi|22472647|gb|BU037127.1|BU037127
EST:     AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAG                         GGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG
genomic: AGGCAAACGCCCCTGACGATTTGCCGCCTCAGCTTCTCTTTGCTCATCAGgtagtactcc ... gtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttgtaaactgtgaagagtggaccacatgatgctgactgtttggtgtgagcagGGTCAGAGAGACTTGAAAGAAGTGCACTGGCACCCACAGATACCGTCGATGATCATATCGACGGCAATCGACGGCTTCAACGTGTTGATGCCTAGCAACA
                                tgctgac  putative branch site (score: 2)