Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtcaacgttgtctaaattatgtccctgacttccttgtatagttatattcataccggatttgactgcccccattcatatgagctaactgaaaattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTACACTGTAACACTGTTTGCTAAGGTTGTTGACAATTTTAAGGTCCGTGCTC

Basic information

species Zea mays
transcript GRMZM2G128995_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G128995_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g51530.1 (Oryza sativa), 3'ss of exon 6
---gtcaacgttgtctaaattatgtccctgacttccttgtatagttatattcataccggatttgactgcccccattcatatgagctaactgaaaattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTACACTGTAACACTGTTTGCTAAGGTTGTTGACAATTTTAAGGTCCGTGCTC
   ||     ||  |   | ||  |       |   | ||||   ||  |   |     |||||| |||     | | |  || |||| |    |||| ||||||||| || || |||||||| || ||||| |||||||| |||||||||||||| |||||| |||||||||||||||||||||| |||||||||||||| |
cttgtttttttttccagcactacatgttgatgtgattagtattcgtaattggttgttatatttgagtgcttttttcctt--gaactaattattgattt-atagGTACCGAGATCGTCTAAAAAACTTTATGAGGACAATGAGTATGCTCTCTACACGGTAACATTGTTTGCTAAGGTTGTTGACAACTTTAAGGTCCGTGCAC

upper sequence: GRMZM2G128995_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G27360.1 (Glycine max), 3'ss of exon 6
gtcaacgttgtctaaattatgtccctgacttccttgtatagttatattcataccggatttgactgcccccattcatat----gagctaactga---aaattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTACACTGTAACACTGTTTGCTAAGGTTGTTGACAATTTTAAGGTCCGTGCTC
        | |   ||| ||||   ||||    ||| ||| ||||   ||| | |  |||    ||     | | |||       || | |     |||| || ||||| || ||||| ||||| ||| | ||||| || |||||||||||||| || ||||||||||| ||   |   ||||  || |||||||      |||| |
-------atattccaatgatgtttttgacactattgaataattatgagcatgctgttttttctagctttattccttattctgattcttattaggataaatgttttagGTCCCCAGGTCTTCTAAGAAGTTGTATGAGGATAATGAATATGCTCTTTATACTGTAACACTCTTCAGTCGTGTTGCGGATAATTTTAGAACTAGTGCAC

upper sequence: GRMZM2G128995_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv17s0000g00460.t01 (Vitis vinifera), 3'ss of exon 6
---gtcaacgttgtctaaatta-tgtccctgacttccttgtatagttatattcataccggatttgactgcccccattcatatgagctaactgaaaattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTACACTGTAACACTGTTTGCTAAGGTTGTTGACAATTTTAAGGTCCGTGCTC
    |  || |||| ||| ||| |||              |  |  | | ||| |      ||  |        | |||| |||   ||||   |||||| ||||| || |||||||| || ||| |  | || |||||||||||||||||||| ||||||||  | |||| |   |||| |||||||||||||    | || |
atgctttactttgtttaagttaatgtttaaagtaataaaattcaccttttttcttttgaagttgaataaattttactcat-tgactgaact---aattttttagGTCCCCAGGTCATCCAAGAAGTTGCACGAGGACAATGAATATGCTCTCTATACTGTAACTATATTTGGTCGTGTTGCTGACAATTTTAAGACTAGCGCAC

upper sequence: GRMZM2G128995_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv14s0068g01280.t01 (Vitis vinifera), 3'ss of exon 6
----------------------------------------------------------------------------------------gt-caacgttgtctaaattatgtccctgacttccttgtatagttatattcataccggatttgactgcccccattcatatgagctaactgaaaattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTACACTGTAACACTGTTTGCTAAGGTTGTTGACAATTTTAAGGTCCGTGCTC
                                                                                        ||   | ||  |     |||  |  |||   |  ||| |||  | | ||          || | ||    | | |  || |  | |   ||  | ||  |||| || |||||||| || |||||  ||||||||||||| |||||||| ||||||||||| ||||||      |||| |||||||||||       ||| |
gtaagaactattttttctggctatatattctaacttaagcgaattatggtcctgaagatatcatctgcagtaggttggtaactggctcgtgtgatgtcataccttttaaatttctggagtatttgaatacat-tgtttgactttttgttcattgtaatcttcctgattaattgagctaacctctttcagGTCCCCAGGTCATCCAAGAAGCTGCATGAAGACAATGAGTATGCTCTATACACTGTAACCCTGTTTCACCGTGTTGCTGACAATTTTAGAACAAATGCAC

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|32907249|gb|CF012062.1|CF012062
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCCTCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|19351863|gb|BM896395.1|BM896395
EST:     ACTCCCAAAAAGACTGGTTGTCA-GCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCCTCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|40334835|gb|CK368905.1|CK368905
EST:     CCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCCTCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: CCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|87153287|gb|DY398076.1|DY398076
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCCTCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|71427970|gb|DR809020.1|DR809020
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|148954149|gb|EC899548.2|EC899548
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|31348626|gb|CD432983.1|CD432983
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCCTCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|60358961|gb|DN225934.1|DN225934
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|67032136|gb|CO460885.1|CO460885
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCCTCTAAAA-GCTCTATGAAGA-AATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|148968978|gb|EE019672.2|EE019672
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|22491457|gb|BU051380.1|BU051380
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTC
EST: gi|211452191|gb|FL398498.1|FL398498
EST:     TCCCAAAAAGACTGGGTGTCTAGCTATGAGGAAATTGGACACATTTCGGG                         GTCCCTAGGTCATCTAAAAAGCTCT
genomic: TCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTG-ACACATT-CGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCT
EST: gi|67018576|gb|CO447325.1|CO447325
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|149010225|gb|EE042044.2|EE042044
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|149000734|gb|EE037952.2|EE037952
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|149098811|gb|EE184822.2|EE184822
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|148963815|gb|EE014912.2|EE014912
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|78076481|gb|DV504915.1|DV504915
EST:     AAGCTATGAGAAAATTGACACATTCGTG                         GTACNTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: AAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|67013699|gb|CO442448.1|CO442448
EST:     ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTG                         GTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: ACTCCCAAAAAGACTGGTTGTCAAGCTATGAGAAAATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
EST: gi|71427969|gb|DR809019.1|DR809019
EST:     AATTGACACATTCGTG                         GTCCCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC
genomic: AATTGACACATTCGTGgtaaggttaa ... aattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcataccggatttgactgcccccattcatatgagctaactgaaaattttatagGTACCTAGGTCATCTAAAAAGCTCTATGAAGACAATGAATATGCTCTCTACACTGTAACACTGTTTGCTAAGGTTGTTGACAATTTTAAGGTCCGTGCTC
                                  agctaac  putative branch site (score: 2)
                                     taactgaaaattttat  TA-rich tract