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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctagctagctagccacggactgtgcctggttagtttagttagttggttggtcggatgacccacctctctcagcggtggtgcctgcctgcctgtcagccacgggggatccgactgtgatctcaccctccacgtgtcttcatgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTTCCGGTCGGCCCCATCGCCGACGTGCCCTACT

Basic information

species Zea mays
transcript GRMZM2G152135_T06
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152135_T06 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os04g48880.1 (Oryza sativa), 3'ss of exon 3
gtaagctagctagctagccacggactgtgcctggttagtttagttagttggttggtcggatgacccacctctctcagcggtggtgcctgcctgcctgtcagccacgggggatccgactgtgatctcaccctccacgtgtcttcatgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTTCCGGTCGGCCCCATCGCCGACGTGCCCTACT
                                     ||      ||     ||   |||  ||  | | |||||   ||| |  |  |||  ||||||||      |  |||| | || ||||| |||  |||||||||    | | ||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| || ||||||||||||||  | ||||||||||
-------------------------------------gtaagcccagcgccctgcagggagcacgtaacgctctctctggtcggccgggcccacctgtcag-----agccatccaattgggatctgacctgccacgtgtccgtttcttacagGGCCTCGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTCCCCGTCGGCCCCATCGCGAATGTGCCCTACT

upper sequence: GRMZM2G152135_T06 (Zea mays), 3'ss of exon 3
lower sequence: Vv02s0025g00240.t01 (Vitis vinifera), 3'ss of exon 4
gtaagctagctagctagccacggactgtgcctggttagtttagttagttggttggtcggatgacccacctctctcagcggtggtgcctgcctgcctgtcagccacgggggatccgactgtgatctcaccctccacgtgtcttcatgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTTCCGGTCGGCCCCATCGCCGACGTGCCCTACT
                               |   | |  | ||  |||| | ||   || ||   | |       | ||   |   |   | | | |  ||      |  ||  | | |  | | |   |  |  | | |||      ||||| || || || ||  |||| ||||||||||||||||| |||||||||||||| |||||||| || || || ||||| ||||||||| |||| || ||  
------------------------------ttacgtggcgtggt--gttgat-ggagagaagaaagatc-------gtgggaatctgtttttacattttggc----atgtttctaattttagtttta---tttatttattttcg-----cagGGACTAGGAATAACAGTGTTTGGCATGGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCTTATC

upper sequence: GRMZM2G152135_T06 (Zea mays), 3'ss of exon 3
lower sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 4
gtaagctagctagctagccacggactgtgcctggttagtt-tagttagttggttggtcggatgacccacctctctcagcggtggtgcctgcctgcctgtcagccacggggg-atccgactgtgatctcaccctccacgtgtcttcatgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTTCCGGTCGGCCCCATCGCCGACGTGCCCTACT
    |  || |   ||| | |  ||||| |||  | | |  |   |   || || ||  ||| ||  |   |  |   |  |  |   |  ||   | | |   ||      |    ||  | | || ||       |||| ||  |  |||||||||| || |||||  |||| || |||||||||||||| |||||||| || || |||||| |  | ||||| || || ||||| ||  |||||||||| |
----gtaagttccatagtctc--actgtacctattgattgatgactctgtgattagt--gattactgattacagttcccaataattattttctatttttgaaaaacaaaaacagtttaccttcagcttacaaaatcagtgt-ttggttacacagGGCCTTGGAATTACCGTGTTTGGAATGGCCTACATGTTTGTCCACGATGGTCTCGTCCACAGGAGATTTCCAGTGGGGCCCATTGCGAACGTGCCCTATT

upper sequence: GRMZM2G152135_T06 (Zea mays), 3'ss of exon 3
lower sequence: EDO99380 (Chlamydomonas reinhardtii), 3'ss of exon 4
gtaagctagctagctagccacggactgtgcctggttagtttagttagttggttggtcggatgacccacctctctcagcggtggtgcctgcctgcctgtcagccacgggggatccgactgtgatctcaccctccacgtgtcttcatgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTTCCGGTCGGCCCCATCGCCGACGTGCCCTACT
                    |  |||  || || |   | | |   |  ||  ||| | ||  ||||    || ||          || |||||||  |  |||      | ||         |  | |  |  |||||  |   | | | ||| ||||| || |||||||||||||| |||||||||||| |||||||||||||||| ||||||||||| || || |                        
-------------------tcatactacgcgtgctccatctcg--ggcggggcggtggcat--cccattcttcccatttcccaccactacctgcctacctcccatcccaaaccc---ccaacccagATCGGCGGCGTGTGCTT-CGGCGC-GGGTCTGGGCATCACGCTGTTCGGCATCGCCTACATGTTCTTCCACGACGGCCTGGTGCACCGCCGCTTCCCCGTGG------------------------

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|211378788|gb|FL471300.1|FL471300
EST:     CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTYTGCTTCGGCGCG                         GGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
genomic: CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCGgtaagctagc ... catgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
EST: gi|211485805|gb|FL428178.1|FL428178
EST:     CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCG                         GGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
genomic: CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCGgtaagctagc ... catgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
EST: gi|211062532|gb|FL481127.1|FL481127
EST:     CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCG                         GGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
genomic: CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCGgtaagctagc ... catgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
EST: gi|149107956|gb|EE292313.2|EE292313
EST:     CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCG                         GGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
genomic: CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCGgtaagctagc ... catgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
EST: gi|211081393|gb|FL128737.1|FL128737
EST:     CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCG                         GGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
genomic: CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCGgtaagctagc ... catgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
EST: gi|211200344|gb|FL437129.1|FL437129
EST:     CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCG                         GGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
genomic: CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCGgtaagctagc ... catgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
EST: gi|37392032|gb|CF633262.1|CF633262
EST:     CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCG                         GGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
genomic: CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCGgtaagctagc ... catgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
EST: gi|211070680|gb|FL369853.1|FL369853
EST:     CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCG                         GGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
genomic: CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCGgtaagctagc ... catgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
EST: gi|211131936|gb|FL382998.1|FL382998
EST:     CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCG                         GGCCKGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
genomic: CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCGgtaagctagc ... catgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
EST: gi|60342760|gb|DN209733.1|DN209733
EST:     CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCG                         GGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC
genomic: CCTACGGCTTCTTCCACCGCGGCATCGTGCCCGGCCTCTGCTTCGGCGCGgtaagctagc ... catgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagccacgggggatccgactgtgatctcaccctccacgtgtcttcatgtcacagGGCCTGGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTTCCGGTCGGCCCCATCGCCGACGTGCCCTACT
                        atctcac  putative branch site (score: 3)
                                       tgtcttc  putative PPT