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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactaatcttgtgctaaaagaaacatgtatgatacagctactatatgatagtgagttctctttctactggttgtgtcagGAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCC

Basic information

species Zea mays
transcript GRMZM2G001457_T02
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G001457_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g01140.3 (Oryza sativa), 3'ss of exon 20
-------------------------------------------------------------------------------------------------------------------gtaactaatcttg--tgctaaaagaaacatgtatgatacagctac---tatatgatagtgagttctctttctactggttgtgtcagGAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCC
                                                                                                                    || |  ||| ||  || | | |  |   | |  || |  | ||    |||  | | ||| ||  |   |||| | ||||  ||||| |||||||||||||| ||||| |||||||||||||| || ||||| ||||| || ||| ||||||||||||||||  ||||||||||||||||||||||
gtaattcttccaccaacaatatagttatcttgttagacagtccttgtagtctattcaattactgtgaataaataaagtattgaaaattaaaaggtgaaaatagtttagaacaccattatcatatcatgcatggttacattactgtatcagacatggttatggttatgaggtggtg-gtaatgaatctatttgttgattcagGGATTCTTCTATATGAAATGTTGTATGGTTATACACCTTTTAGAGGAAAAACGAGGCAACGGACATTTGCTAATATCTTGCACAAGGATATCAGATTTCC

upper sequence: GRMZM2G001457_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os12g01140.1 (Oryza sativa), 3'ss of exon 20
-------------------------------------------------------------------------------------------------------------------gtaactaatcttg--tgctaaaagaaacatgtatgatacagctac---tatatgatagtgagttctctttctactggttgtgtcagGAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCC
                                                                                                                    || |  ||| ||  || | | |  |   | |  || |  | ||    ||   | | ||| ||  |   |||| | ||||  ||||| |||||||||||||| ||||| |||||||||||||| || ||||| ||||| || ||| ||||||||||||||||  ||||||||||||||||||||||
gtaattcttccaccaacaatatagttatcttgttagacagtccttgtagtctattcaattactgtgaataaataaagtattgaaaattaaaaggtgaaaatagtttagaacaccattatcatatcatgcatggttacattactgtatcagacatggttatggttacgaggtggtg-gtaatgaatctatttgttgattcagGGATTCTTCTATATGAAATGTTGTATGGTTATACACCTTTTAGAGGAAAAACGAGGCAACGGACATTTGCTAATATCTTGCACAAGGATATCAGATTTCC

upper sequence: GRMZM2G001457_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA12G07890.2 (Glycine max), 3'ss of exon 21
-------------gtaact-aatcttgtgctaaaagaaacatgtatgatacagctactatatgatagtgagttctctttctac------tggttgtgtcagGAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCC
             | |||| || ||  || |       ||||  | || ||| |   || |  | |     | || |  || |      |  || | |||||||||||| ||||||| ||||| ||||| |||||||| ||||| || || || || ||||| |||||| | |||||||| ||||||||  | | ||||||
gaatttaatggccgaaacttaacctattggtctctttcacataaaagacaca-cggatacactaaaaaacatactttgactgcatgccttacttttttcagGAATTCTTTTATATGAAATGTTTTATGGGTATACACCATTCAGGGGAAAGACTAGGCAAAGAACATTTACAAATATTCTCCACAAGGACCTTAAATTTCC

upper sequence: GRMZM2G001457_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G40550.1 (Glycine max), 3'ss of exon 19
-------------------gtaactaatcttgtgctaaaagaaacatgtatgatacagctactatatgatagtgagttctctttctactggttgtgtcagGAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCC
                     |   ||   |   ||   |  || || |   | | |   |   |||   |    | |    ||| |    || | | ||| |||||  ||||||| ||| | ||||| ||||| || ||| | ||||||||||||||||  |||||||| |||||||| ||||||||  | | ||||||
ctgtcggactttttcacatacacaaaaggcttcactcggatgaatatttggaacaaattaaaattatatcacattgcttgacttcaatgactttttttagGTATTCTAATATATGAAATGCTTTATGGGTATACGCCATTCCGGGGGAAAACAAGACAAAAAACATTTGCAAATATTCTTCACAAGGACCTTAAATTTCC

upper sequence: GRMZM2G001457_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv06s0004g03700.t01 (Vitis vinifera), 3'ss of exon 20
---------------------gtaactaatct-tgtgctaaaagaaacatgtatgatacagctactatatgatagtgagttctctttctactggttgtgtcagGAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCC
                     ||      | | ||  ||||||     |  | | |  ||  |||| | |  |      ||   | | |  | | | | | ||| |||||||||||||| ||| | ||||| |||||||| || || || || ||||| |||| ||||||||| || ||||| ||||| ||| | | ||||||
aaatactatatatgtgtgtgtgtgttccctttgtgcactaaaactcttaattttaactcaa-tactgttt--tttctgattgattatatgtttgctcttttagGCATTCTTCTATATGAAATGCTTTATGGATATACACCATTTAGGGGAAAGACAAGGCAAAAGACATTTGCCAACATTCTTCACAAAGATCTTAAATTTCC

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|6672132|gb|AW282307.1|AW282307
EST:     TGTAGATTGGTGGGCGCTAG                         GGGTTCTTCTATATGAGATGTTATATGGTTATACACCCTTCAGAGGGAAAA
genomic: TGTAGATTGGTGGGCGCTAGgtaactaatc ... gttgtgtcagGAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAA
EST: gi|28985222|gb|BQ538375.2|BQ538375
EST:     CTGGCCATACGAGTGCTGTAGATTGGTGGGCGCTAG                         GAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAA
genomic: CTGGCCATACGAGTGCTGTAGATTGGTGGGCGCTAGgtaactaatc ... gttgtgtcagGAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAA
EST: gi|13490746|gb|BG517510.1|BG517510
EST:     NNNNNNNACCGGAGCTGGCCATACGAGTGCTGTAGATTGGTGGGCGCTAG                         GAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAA
genomic: -ATTATTACCGGAGCTGGCCATACGAGTGCTGTAGATTGGTGGGCGCTAGgtaactaatc ... gttgtgtcagGAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtatgatacagctactatatgatagtgagttctctttctactggttgtgtcagGAATTCTTCTATATGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCC
                 tatatgata  TA-rich tract