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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgttagctgtttctactatgatgatatttctagtcttattttattttgcacacctctatagttctatcgttagatgcatctgaaatatcaatatttctttatatagattcagtgcccttttaacatctcttattacctgctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAAGCTAGGACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTA

Basic information

species Zea mays
transcript GRMZM2G704093_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G704093_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 3'ss of exon 9
gtagtgttagctgtttctactatgatgatatttctagtcttattttattttgcacacctctatagttctatc-gttagatgcatctgaaatatcaata--tttctttatatagattcagtgcccttttaacatctctta--ttacctgctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAAGCTAGGACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTA
                                                          |||||   ||||||  || |  || |     ||||||  |  ||  ||||| | |||| | | | ||| ||| ||    |   ||   ||||| |   |||||||||||||||||||||||||||| || || |||| ||||||||||||||| |||||||||||||| || |||||||||||||||||||| |||||||
----------------------------------------------------------tctatgcctctatccattggtggcgtacacgatatcatcaatttcttttatttggatttaatactcttgtaaaataaaatgactttggtgctgttctcagGACATTGAATTATCCAAAGAAATAAATGAGTCTTTCAAGCAATCATCTCAAGCAAGGACAAAGCTTCCATCTGGCATTGAAATGAGTGTTCACGTGCTTA

upper sequence: GRMZM2G704093_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA05G27240.1 (Glycine max), 3'ss of exon 9
gtagtgttagctgtttctactatgatgatatttctagtcttattttattttgcacacctctatagttctatcgttagatgcatctgaaatatcaatatttctttatatagattcagtgcccttttaacatctcttattacctgctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAAGCTAGGACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTA
                                             | ||||| |       ||  | || |    |  | ||  |||| ||| | || |||||  ||      |||   |     |  |  ||| |     |  |   |  |||||||||||||||| ||||||||||| ||||||||||  || ||||| || || ||| |||| ||| | ||||| ||||||||||||||||||||  | |
--------------------------------------------atcttttgaatg-----atgatgctctgacaaacttca--tgaattatta-tagttcttattaacatcacagcttctgacaactacatctcaaatttttgtaaat-cagGACATTGAATTATCAAAAGAAATAAATGATTCATTCAAACAGTCATCACAGGCGAGGTCAAAACTTGCATCAGGGATTGAAATGAGTGTTCATGTTTTAA

upper sequence: GRMZM2G704093_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA13G29010.1 (Glycine max), 3'ss of exon 10
gtagtgttagctgtttctactatgatgatatttctagtcttattttattttgcacacctctat-agttct-atcgttagatgcatctgaaatatcaatatttctttatatagattcagtgcccttttaacatctcttattacctgctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAAGCTAGGACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTA
                                                         || ||| |||| | ||  |  ||   |  | |   || | |||  |||| | |  || || ||   |||  |  |   |||||   |      |  |||||||||||||||| |||||||||||||| || ||||  || ||||| || ||||||||||| || || || || ||||||||||||||||||||  | |
------------------------------------------------------ggactatatgagttatgatgatctgacaaacttcatgaattactatagctttttttt-atccattgttttttataactacattattttttttctaattcagGACATTGAATTATCAAAAGAAATAAACGAGTCCTTCAAACAGTCATCCCAGGCTAGGACAAAACTCCCATCCGGGATTGAAATGAGTGTTCATGTTTTGA

upper sequence: GRMZM2G704093_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 9
gtagtgttagctgtttctactatgatgatatttctagtcttattttattttgcacacctctatagttctatcgttagatgcatctgaaatatcaatatttctttatatagattcagtgcccttttaacatctcttattacctgctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAAGCTAGGACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTA
                                                 ||       | | |  |  | |    |  | ||  |||| ||| | || |||||  ||      |||   |     |  || ||| |     |  ||  |  |||||||||||||||| ||||||||||| || |||||||  || ||||| || || ||| |||| ||| | ||||| ||||||||||||||||||||  | |
-------------------------------------------------ttattgttttgtgtgatgatctgacaaacttca--tgaattatta-tagttcttattaacatcacagcttctgacaactatgtctcaaattgttgtgaat-cagGACATTGAATTATCAAAAGAAATAAATGAGTCATTCAAACAGTCATCACAGGCGAGGTCAAAACTTGCATCAGGGATTGAAATGAGTGTTCATGTTTTAA

upper sequence: GRMZM2G704093_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA15G10030.1 (Glycine max), 3'ss of exon 9
gtagtgttagctgtttctactatgatgatatttctagtcttattttattttgcacacctctatagttctatcgttagatgcatc-tgaaatatcaatatttctttatatagattcagtgcccttttaacatctcttattacctgctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAAGCTAGGACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTA
                                                     ||    |  || |  |    | | | || |  |||| ||| |    || | | |||   ||   |    |    || |   || ||   | ||  ||  |||||||||||||||| |||||||||||||| || |||| ||| ||||| || ||||||||||| || || ||||| ||||||||||||||||||||  | |
-----------------------------------------------------actatgccgtaatgatgatctgacaagctttatgaattattatagcttttatttatctgttgctttttataactacgttattttttttttcctaatt-cagGACATTGAATTATCAAAAGAAATAAACGAGTCCTTCAAGCAGTCATCCCAGGCTAGGACAAAACTCCCATCAGGGATTGAAATGAGTGTTCATGTCTTGA

upper sequence: GRMZM2G704093_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 9
gtagtgttagctgtttctactatgatgatatttctagtcttattttattttgcacacctctatagttctatcgttagatgcatctgaaatatcaatatttctttatatagattcagtgcccttttaacatctcttattacctgctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAAGCTAGGACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTA
                                   | | |||| |   |||| | |  || |||   | | | |   ||   | ||    ||  |||       || |  | | | |     |  |||||||  ||  |  |     ||  |||||||||||||||| ||||| ||||| || || ||||  |||||||| ||||| |||||||| |||||  |||| ||||| ||||||||||||||  | |
-----------------------------------aatgttatatgggtttgtaaatttccata---caagcttataatttgtttg---catagata-------atgttaaattattttttatgcaacatcttgtaacattt-----ttacagGACATTGAATTATCTAAAGAGATAAATGAGTCCTTCAAACAATCATCGCAAGCCAGGACAAAACTTCCAACAGGAATTGAGATGAGTGTTCATGTCTTAA

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|32809761|gb|CD961995.1|CD961995
EST:     AAACTGAGTGTGGAAGTCAGTTTACCAATAAGCTGGAGGGAATGTTCAAG                         GACATTGAACTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAA
genomic: AAACTGAGTGTGGAAGTCAGTTTACCAATAAGCTGGAGGGAATGTTCAAGgtagtgttag ... ctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAA
EST: gi|31357483|gb|CD441840.1|CD441840
EST:     AAACTGAGTGTGGAAGTCAGTTTACCAATAAGCTGGAGGGAATGTTCAAG                         GACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAA
genomic: AAACTGAGTGTGGAAGTCAGTTTACCAATAAGCTGGAGGGAATGTTCAAGgtagtgttag ... ctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAA
EST: gi|31353844|gb|CD438201.1|CD438201
EST:     AAACTGAGTGTGGAAGTCAGTTTACCAATAAGCTGGAGGGAATGTTCAAG                         GACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCT
genomic: AAACTGAGTGTGGAAGTCAGTTTACCAATAAGCTGGAGGGAATGTTCAAGgtagtgttag ... ctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttatatagattcagtgcccttttaacatctcttattacctgctggttgtagGACATTGAATTATCCAAAGAAATAAACGATTCATTCAGGCAATCATCTCAAGCTAGGACAAAGCTTCCCTCAGGCATTGAAATGAGTGTTCATGTGCTTA
                       ttttaac  putative branch site (score: 2)
     tatatagatt  TA-rich tract