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'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggttcagagtcactattatgttgagcatttggtatattctcatgcacttatccctgtacaaagacatgcctctcagttttaactggatcctgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG

Basic information

species Zea mays
transcript GRMZM2G022777_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g55260.1 (Oryza sativa), 3'ss of exon 6
ggttcagagtcactattatgttgagcatttggtatattctcatgcacttatccctgtacaaagacat-gcctctcagttttaactggatcctgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG
   |  |  |    | ||  ||||   |||   || ||   ||     | ||  |    | | || | |    ||||||| ||     |||| || |  |||||||||||||||| || || ||||||||||| ||||| || ||||||||||||||||||||||||||||| |||||||||||||
atatttgcattgtgagtactttgaaattttctgattttgcaatatctctgtctattactatatacttcggtagtcagtttcaagcaattcctatt-tgcagACAATGCTGGCAAAGGCTGTTGCTACTGAGTGTAAAACTACATTCTTCAACATTTCAGCATCATCAATTGTTAGCAAATGGCGTG

upper sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT2G34560.1 (Arabidopsis thaliana), 3'ss of exon 6
-------------------------------------------------------------ggttcagagtcactatta--tgttgagcatttggtatattctcatgcacttatccctgtacaaagacatgcctctcagttt-taactg----gatcctgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG
                                                               |||| |  |||    |    || |  | ||  |  |  ||    || |||   || |  ||||       |||   |   |||| |      || | || |  |||| ||||| ||||| || || ||||| |||||||| || || ||||||||||| ||||| |||||  |||| ||||||||| | |
gtgcgatgattctatctcgaatgtgtttttacttttgaactcttactctcttttgcatttcaattcatatgcacaccaaaccattaactaatttcttgagcctagctcaattagatct-tgtaaagtttattttcttgatgcataacagtcttattcgtcttgtgcagACTATGCTTGCAAAGGCTGTTGCTACAGAGTGCAATACAACATTCTTCAACATCTCAGCCTCATCTGTTGTTAGCAAATGGAGAG

upper sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv10s0003g03500.t01 (Vitis vinifera), 3'ss of exon 6
ggttcagagtcactattatgttgagcatt-tggtatattctcatgcacttatccctgtacaaagacatgcctctcagttttaa-ctggatcctgttctt-tagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG
   |     |  | | | | |    |||  || |   |  |||||| ||| | |  |    ||    |   | | | ||  || ||  || || || ||  |||| ||||| ||||| || ||||| || |||||||||||||| || ||||| ||||| ||||| ||  |||||||||||||||| |
---ttgcctttccaaatttctctgtcatgatgttgcttgatcatgctcttcttctaggttgaattgttaattgttaattgaaatctccattcttttgttgcagACTATGCTTGCAAAGGCTGTCGCAACCGAGTGCAAAACCACATTTTTCAATATTTCTGCATCCTCTGTTGTCAGCAAATGGCGAG

upper sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 6
lower sequence: PP1S51_233V6.1 (Physcomitrella patens), 3'ss of exon 1
----------------------------------------------------------------------------------ggtt-cagagtcactattatg-ttgagcatttggtatattctcatgcacttatccctgtacaaagacatgcctctcagttttaactggatcctgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG---------------
                                                                                  |||| |    ||    || || || || | ||  || |   |  ||   || |      |   |    ||      ||||     | | ||         ||||||||||||| || || || || || || ||||| ||||| |||||||||||||| || || || || || ||||||||||| |               
gtatttcgcactcttctccttctttgattgcatcctcaataggttcaagggggttttactctcagctgtattacaatgtgcgggttacgccttcgtcgttttggtttaggactt--tagaggttggtgggtttgtggagtaattgaatactgaaatagagttcggcgttgctcacaactggcagACAATGCTGGCGAAGGCTGTGGCGACGGAATGCAAGACCACGTTCTTCAACATTTCTGCCTCTTCCATAGTTAGCAAATGGCGGGGCGATTCGGAGAAGC

upper sequence: GRMZM2G022777_T01 (Zea mays), 3'ss of exon 6
lower sequence: EFJ34591 (Selaginella moellendorffii), 3'ss of exon 2
ggttcagagtcactattatgttgagcatttggtatattctcatgcacttatccctgtacaaagacatgcctctcagttttaactggatcctgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG
                                           | |   |||  ||||   |     || | | |   |||  |||    | || |  ||||  |||| || ||||| || ||||| ||||| || |||||||||||||||||||| || ||  | ||||||||||| |  || |
-------------------------------------------gtatagatcg-tgtagctatgttagcgtgt-aacgttacatgg----tatt-tacagACTTTGCTCGCCAAAGCAGTGGCTACAGAGTGTAACACCACCTTCTTCAACATTTCTGCGTCCACCATTGTCAGCAAGTACCGCG

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|22472534|gb|BU037014.1|BU037014
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGT
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGT
EST: gi|166535406|gb|EG282209.1|EG282209
EST:     TGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|76281419|gb|DV020987.1|DV020987
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|91876817|gb|EB406774.1|EB406774
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|78106806|gb|DV525224.1|DV525224
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|149035101|gb|EE155087.2|EE155087
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|211165539|gb|FL456882.1|FL456882
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|78121929|gb|DV540313.1|DV540313
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|32837432|gb|CD977110.1|CD977110
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGAACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|148963213|gb|EE014191.2|EE014191
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|71297616|gb|DR784759.1|DR784759
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|32849820|gb|CD989501.1|CD989501
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGAACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|78109695|gb|DV528111.1|DV528111
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|76280583|gb|DV020151.1|DV020151
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|149080059|gb|EE169077.2|EE169077
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|67021064|gb|CO449813.1|CO449813
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|148963079|gb|EE014036.2|EE014036
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|32838514|gb|CD978192.1|CD978192
EST:     TTCTCCATGGAAAGGGCATCTTACTTTTTGGCCCCCCAGGAACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTCTCCATGGAAA-GGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|31355569|gb|CD439926.1|CD439926
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|76933170|gb|DV173349.1|DV173349
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|148995361|gb|EE034575.2|EE034575
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|31355560|gb|CD439917.1|CD439917
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
EST: gi|211131749|gb|FL468282.1|FL468282
EST:     TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAG                         ACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC
genomic: TTTCTCCATGGAAAGGCATCTTACTTTTTGGCCCCCCAGGGACAGGAAAGgtttgtaaat ... tgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttatccctgtacaaagacatgcctctcagttttaactggatcctgttctttagACAATGCTGGCAAAAGCGGTCGCTACTGAGTGCAAAACCACCTTCTTCAACATTTCAGCATCATCAATTGTCAGCAAATGGCGTG
                               ttttaac  putative branch site (score: 2)
                                          tcctgttcttt  putative PPT
                             agttttaa  TA-rich tract