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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagggagctgttctttctgaaaactacattcccgttagattacatcaacattgctagtaaatgatgtcatttttgcagATCCATTGTGTGTGGGCTGCTGCAGAAGCATATTCAGCACCTTCAATTGTGCTAACATCTCGTTCACATGATGGGTTTCATGTTTTTGATGATTTCCGCG

Basic information

species Zea mays
transcript GRMZM2G154165_T03
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA01G01270.1 (Glycine max), 3'ss of exon 16
--------gtaagggagctgttctttctgaaaactacattcccgttagattac-atcaacattgctagtaaatgat-----------gtcatttttgcagATCCATTGTGTGTGGGCTGCTGCAGAAGCATATTCAGCACCTTCAATTGTGCTAACATCTCGTTCACATGATGGGTTTCATGTTTTTGATGATTTCCGCG
         | |      | ||||||||||| | ||    ||  | |   |||  |  |  ||   | ||| |               ||  |  || || | ||| |||| ||||| || |||||||| |||||||| ||||| ||||| |||||||| | ||||||||||||  ||||||||||||| |||||  | |
ttcctatattgattttttttttctttctgaacaataatgccctttcatgctactgtgtatgttataaataagttcctcactatcttgatctctcatgtagGTTCATAGTGTATGGGCAGCAGCAGAAGCTTATTCAGCCCCTTCTATTGTTCTAACATCACATTCACATGATGGACTTCATGTTTTTGACGATTTTAGAG

upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA16G08410.1 (Glycine max), 3'ss of exon 16
-------gtaagggagctgttctttctgaaaactacattcccgttagattac-atcaacattgctagtaaatgatgtcatttt------------tgcagATCCATTGTGTGTGGGCTGCTGCAGAAGCATATTCAGCACCTTCAATTGTGCTAACATCTCGTTCACATGATGGGTTTCATGTTTTTGATGATTTCCGCG
       |        || ||||||||||| | ||    ||  | |   |||  |  |  ||  ||  |||     ||| | |            || || | ||  |||| ||||| || ||||||||||||||||| ||||| ||||| |||||||| | ||||||||||||  ||||||| |||||||||||  | |
ttatattgattcttttcttttctttctgaacaataatgccctttcatgctactgtgtatgttaataacaaagttcctcactatcttgatctctcatgtagGTTCACAGTGTATGGGCAGCAGCAGAAGCATATTCAGCCCCTTCTATTGTTCTAACATCGCATTCACATGATGGAATTCATGTATTTGATGATTTTAGAG

upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 14
lower sequence: AT5G19690.1 (Arabidopsis thaliana), 3'ss of exon 16
-----------gtaagggagctgttctttctgaaaactacattc--ccgttagatta--catcaacatt-----gctagta------aatg-atgtcatt--tttgcagATCCATTGTGTGTGGGCTGCTGCAGAAGCATATTCAGCACCTTCAATTGTGCTAACATCTCGTTCACATGATGGGTTTCATGTTTTTGATGATTTCCGCG
            |    ||| |||| |||       | |  ||   | ||||| ||   | ||||||||     | ||| |      |||| ||  | ||  |||| ||||||||||||| ||||| |||||||||||||||||||| || ||||| ||  | |||||||  |||| ||||||  | || || |||||||||||  | |
gtatgcagactttcttcgagttgttattttatggtcccatcttttacagttagttttgtcgtcaacattcaaatgataggagttcgaaatgcatacctttgttttgtagATCCATTGTGTTTGGGCAGCTGCAGAAGCATATTCAGCTCCATCAATAGTTTTGACATCTCAGTCACGTGATGGCCTACACGTCTTTGATGATTTTAGAG

upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 14
lower sequence: Vv11s0016g03320.t01 (Vitis vinifera), 3'ss of exon 16
-------------------gtaagggagctgttctttctgaaaactacattcccgtt-agattacatcaacattgctagtaaatgatgtcatttttgcagATCCATTGTGTGTGGGCTGCTGCAGAAGCATATTCAGCACCTTCAATTGTGCTAACATCTCGTTCACATGATGGGTTTCATGTTTTTGATGATTTCCGCG
                    |          || || |||  ||||  | | | ||| |||  | |  |    |   |||  | |   |  || ||| || | |||||||| ||||| ||||| ||||| || ||||| ||||| |||||  ||||||||| ||| ||||||||  |||| ||||||||||||||  | |
cctagcttggttctattccttctatttttcttttttcctgctaactgaaattctgttcagacaaaaaaagtcatttgagtgtaagtgatacttcttgtagGTTCATTGTGTTTGGGCAGCTGCGGAAGCTTACTCAGCCCCTTCTATTGTTTTAACATCTCATTCTCATGATGGCCTTCACGTTTTTGATGATTTTAGAG

upper sequence: GRMZM2G154165_T03 (Zea mays), 3'ss of exon 14
lower sequence: PP1S404_37V6.1 (Physcomitrella patens), 3'ss of exon 16
------------gtaagggagctgttctttctgaaaactacattcccgttaga-ttacat----caacattgctagtaaatgatgtca----tttttgcagATCCATTGTGTGTGGGCTGCTGCAGAAGCATATTCAGCACCTTCAATTGTGCTAACATCTCGTTCACATGATGGGTTTCATGTTTTTGATGATTTCCGCG
            | || | |  ||  ||| | |||| |    |     |   | || ||     | || | | |     ||| ||| |    |   ||||| | ||||||||||||||||| ||||| || || |||||||||||||||||||| ||||||||  |  | |||||  | || || ||||| |||||| | |
tgtctatgtggcgcaatgaatatgccctt-cagaaagccgggtcgtactcgaagttgcagagtacgacgtggatgacttatgttgttaaaattggctgcagGTTCATTGTGTGTGGGCTGCAGCAGAGGCTTACTCAGCACCTTCAATTGTGCTGACATCTCGGACTGAGGATGGAGTGCACGTCTTTGACGATTTCAGAG

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|33093933|gb|CF053927.1|CF053927
EST:     CATCTGCTGTGGGCATAATGCTGCTGACCATACTTTCTGGTTTTTACGTG                         ATCCATTGTGTGTGGGCTGCTGCAGAAGCATATTCAGCACCTTCAATTGTT
genomic: CATCTGCTGTGGGCATAATGCTGCTGACCATACTTTCTGGTTTTTACGTGgtaagggagc ... atttttgcagATCCATTGTGTGTGGGCTGCTGCAGAAGCATATTCAGCACCTTCAATTGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacattcccgttagattacatcaacattgctagtaaatgatgtcatttttgcagATCCATTGTGTGTGGGCTGCTGCAGAAGCATATTCAGCACCTTCAATTGTGCTAACATCTCGTTCACATGATGGGTTTCATGTTTTTGATGATTTCCGCG
                                           tcattttt  CT-rich tract
           ttagatta  TA-rich tract