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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagtttcaattattctagaagagagctgttttgagatattattgttctgaacttgtttcagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG

Basic information

species Zea mays
transcript GRMZM2G169773_T01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os01g57220.1 (Oryza sativa), 3'ss of exon 11
gtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagt------ttcaattattctagaagagagctgttttgagatattattgttctgaacttgtttcagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG
                                                                || ||  ||||  |||    ||||  | ||| ||   |  | |      |||| ||  ||  |      |   || |||  | |    |||   ||     | ||||||||||||||||| |||||||||||||| || ||||| |||||||| || ||||| || ||||||||||||||    |||||||||||||||  | | |
------------------------------------------------------------ccctaagattttgttcttgt----tgcaataaaatttccgctgcaatgctgtcttcattttctcctgggagatgtcattctgaact-tggccgtttgaaa-----tgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGTGAGGCAGCTCGTGGTGCTATGAGATCGGCCTTTTGATAGAGCTGCTTCG

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA06G45160.1 (Glycine max), 3'ss of exon 12
gtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagtttcaattattctagaagagagctgttttgagatattat-tgttctgaacttgtttcagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG-
                                                           ||   | |||  |    ||||  ||  || ||||   |||||| |||||      | |        |||   |||||    ||||| || | | || || || ||||||||||| |||||||||||||| ||||| || |||||||   | ||||| ||||| ||  | ||  | |||| |   ||  | | | |  || || ||  
----------------------------------------------------------gtttttatcatattagcactgtaacac-caacata--ttctcttgaagtt------actt-------gagtctttttgtttgattatgtgcttttaaatt-ttgcagCAAGTATATATGTACTTCCGTGGCAGTGGCAAGGCTGCAGTTTTAAAGCGTGAGGCTGCGAGAGGGACAATGATGGCAGCTCTATAACATGGC-ACTTACA

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA07G31090.3 (Glycine max), 3'ss of exon 11
gtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagtttcaattattctagaagagagctgttttgagatattattgttctgaacttgttt-cagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG
                                            || |    | | |  ||   ||| |     |  | |      ||||  |    |  ||| | |  ||    |||   | || |  |   |  |   | | ||  | ||   |  | | |||||||||||||||||||||||||| ||||| || ||||| |||||||| || || || ||| | || || ||||||  |||  | ||||  | | | |  |
--------------------------------------------gtttgattacacttcttg--aactttacaatcatcttaagcacatc-caccaccattttgaatgacatgatttccttacgaca--tacctctactcactgtttctttggtttgctatacagCAAGTATACATGTACTTCCGTGGCAGTGGTAAGGCTGCTGAGATGAAACGGGAAGCCGCCAGGGGAGCAATGAGGGCTGCAATATGATGCATCAATCATG

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA12G32860.1 (Glycine max), 3'ss of exon 10
gtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagtttcaattattctagaagagagctgttttgagatattattgttctgaacttgtttcagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG
                                                                             | | | ||   || ||| ||||    | | | || |   |       || | | | ||     |   ||  | |  |   |   ||||||||||||||||||||||| || |||||||| ||||||| ||||| ||| || || || |  || || ||||||   ||  |                 
----------------------------------------------------------------------------gtttttaata-gtcctaaactctacc-atggtgcattctcttggctctagtgttttctttgttgacatttaatttatatacg---cagCAAGTATACATGTACTTCCGGGGCAGTGGAAAGGCTGCAGCGATGAGGCGTGAAGCTGCGCAAGGGGCCATGAGGGCAGCTCTA----------------

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA13G31830.1 (Glycine max), 3'ss of exon 13
gtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagtttcaattattctagaagagagctgttttgagatattattgttctgaacttgttt-cagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG
                                                           || | || ||     |    | |  || |   |     | |||     ||  | |   |   |  | ||    | |    | || |||||      |||  | ||||||||||| |||||||||||||| ||||| || ||||| ||||||||||  ||||| ||  | || ||  |||||  |||    |||             
----------------------------------------------------------gtttg-aatatacatctcaatttttttggaaagtggaaacacttagcactttgactgaacataaccaaagtacatgttcactttttttgttt---gtttgcatacagCAAGTATATATGTACTTCCGTGGCAGTGGTAAGGCTGCTGAGATGAAGCAGGAGGCTGCAAGAGGAGCATTGAGGGCTGCAAGATGA-------------

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA13G25460.1 (Glycine max), 3'ss of exon 11
gtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagtttcaattattctagaagagagctgttttgagatattattgttctgaacttgtttcagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG
                          | |  ||| | ||||      |    ||  || | |||| ||||         | |       ||| || ||  | | | || | |  || | |    |    |  ||||   |  |||                ||||||||||||||||||||||| || ||||| || || || |||||||| || ||||| ||  | || ||  |||||  |||  | ||||  | |   || |
-------------------------gtttgactacacttcttgaactttccaatcatcttaagca-catg-caccagcattttgaatgccatgatttccttatgaattaccac-ataccaactcactatttctttggtttgctata---------------cagCAAGTATACATGTACTTCCGCGGCAGTGGGAAGGCCGCTGAGATGAAACGGGAGGCCGCAAGGGGAGCACTGAGGGCTGCAATATGATTCATCAGTCTTG

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA15G07480.2 (Glycine max), 3'ss of exon 11
gtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagtttcaattattctagaagagagctgttttgagatattattgttctgaacttgtttcagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG
                                              ||  | |||| |||  | |      | ||| ||     || |  |||      |||     ||  | |   |   |  | || |  | |     | | ||  | ||   |   | ||||||||||| |||||||||||||| ||||| || ||||| ||||||||||  ||||| ||  | || || |||||| ||||  | ||||| |      |  
----------------------------------------------gttcgaatatacatctgaa------tatttttggaaagtggaa-ata------cttagcactttgactgaacataaccaaagttaatgtt---cactttttgtttgg-ttgcatacagCAAGTATATATGTACTTCCGTGGCAGTGGTAAGGCTGCTGAGATGAAGCAGGAGGCTGCAAGAGGAGCAATGAGGGATGCAATATGATAAATTACTTTGT

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT1G03550.1 (Arabidopsis thaliana), 3'ss of exon 11
gtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagtttcaattattctagaagagagctgttttgagatattat--tgttctgaacttg--tttcagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG
                                                                      || | ||    || |  |    |   | | |      |  || |   || |||   | |||||||   |    ||   || |   ||| |  ||||||||||||||    |||||||| || ||||| |||||||||||||||||||| || ||  |        |  ||| |  |||  | |||   |   ||    
----------------------------------------------------------------------gtttctcaacttcttctactccagaatttatcagcactgtaaat-cacttgaatccatctgtttttctaacccatgacgtgcaatactcgactttcagCAAGTATATGCATACTTCCGAGGGAGTGGCAAAGCTGCAGAGATGAAGCGTGAAGCTACAAAATCGACCTTGATGCGTGCACTATGAAGAAATCACTCTT

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT1G11180.1 (Arabidopsis thaliana), 3'ss of exon 11
gtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagtttcaatta-ttctagaagagagctgttttgagatattattgttctgaacttgtttcagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG
                                                                        || ||| ||  |   |||| |  |  ||| |   |    ||   ||||  |  | | || |||| | | ||| |  || ||       | ||||||||||||||||||||| | ||||| |||||||| |  || ||||  || || || ||  | || || |||||   |||| | |||   |       | 
------------------------------------------------------------------------gtctctttccta---atcagatacaatctctggatcgatataggttctgaagcaaaactcttttta-acatt-tgattgtg-------tgcagCAAGTATACATGTACTTCAGAGGAAGCGGAAAAGCGGATGATATGAGACGGGATGCTGCAAGAGGAGCCATGAGAGCTGCCATATGAGGCAAATGTAAAT

upper sequence: GRMZM2G169773_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv00s0301g00030.t01 (Vitis vinifera), 3'ss of exon 12
gtgggtatcatgtttttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaa-catggtgtttctgtctcatgcatcataatctctcttta-agtttcaattattctagaagagagctgttttgagatattattgttctgaacttgttt-cagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG
                                              ||     |  || ||  ||  | |  |  |   |    | ||||    | ||||  | | ||  | ||| || |           ||||    | |  | ||||| | | || |||| ||||||||||| ||||||||||| || ||||| ||||| || ||||||||||| || || ||  | || || ||||||  ||| || | |    || |     
----------------------------------------------gtccaacttctctttcccattcctaataatcacgg--aaagcatagctacctctgctaataggatgaatcatgc-----agctcttgttcactgtttctgttgtt-tcacctggtttgcagCAAGTATATATGTACTTCCGAGGCAGTGGCAAAGCAGCTGAGATGAAGCGTGAAGCCGCAAGAGGAGCCATGAGGGCTGCATTGTAAGGCTGCAATTCCC

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|166600640|gb|EG168684.1|EG168684
EST:     CATCGTTGTCATTCAG                         CAAGTATACATGTACTTCCGTGGAAGTGGAAAGGCTGCAGAGATGAAGCGA
genomic: CATCGTTGTCATTCAGgtgggtatca ... cttgtttcagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caattattctagaagagagctgttttgagatattattgttctgaacttgtttcagCAAGTATACATGTACTTCCGTGGAAGTGGAAAAGCTGCAGAGATGAAGCGAGAGGCGGCCCGTGGTGCTATGAGGAATGCCTTTTGATAGAGCGACCTAG
                                             cttgtttc  CT-rich tract
                      ttttgagatattatt  TA-rich tract