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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggcgtgattcggtgattttttctataggatttcgatgcggattccttgatctgcgtttctactgcatgttgatgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA

Basic information

species Zea mays
transcript GRMZM2G150867_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g31000.1 (Oryza sativa), 3'ss of exon 1
-----------------------------------------------------------------------------------------------------gtggcgtgattcggtgattttttctataggatttcgatgcggattccttgatctgcgtttctactgcatgttgatgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
                                                                                                      | |  | ||  | ||  || || | |    ||| |    || |     |||  | | || |  ||  |  |  |   ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| || ||||| || |||||||  ||||
gtgaggatcttgtcctttatttatttattttttttggggggggggggggtggaattgtgtttttgcccggtttgattcttttctttctattggtggtctccatcgtctaatctgatgtgttgttgtttgttgttttgg---gggtggggggattggggattttcttggtttcttgttgttgcagGATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAGTTCTTCGTGGAATTCCGGGGGCCTACTGAAA

upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA07G07540.2 (Glycine max), 3'ss of exon 1
-------------------------gtggcgtgattcggtgattttttctataggatttcgatgcggattccttgatctgcgtttctactgcatgttgatgcct------gcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
                          |   || ||    |  |||||   || || | || | |       ||||||     |||  |    |  ||  |   |        ||||||||||| |||||||||||||| ||| | || ||||| ||||| ||||| | |||  | || | ||| || || || |
gttttccttttcccttctatttccattaaagttataattttttttttctaattgggtgtctaagtttgactcttgattctgattttgatgttagtttttttttttaattaatagGATGATGAGTGACTACAAGGTGGAGATGATTAATGATGGAATGCAAGAGTTTTATGTGCATTTCCATGGACCCAATGAGA

upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G01940.3 (Glycine max), 3'ss of exon 1
-----------------------------------gtggcgtgattcggtgattttttctataggatttcgatgcggattccttgatctgcgtttctactgcatgt-tgatgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
                                     |   | |    ||| | ||||  |||   | | |           |||   ||||||       ||||  | | | |  |||||||||||| || ||||||||||| | ||| |||||||| ||||| ||||||||||| ||||| |  || || || || |
gtctgtgatcttttccgaattttttttttgtattttcgatttcagaaagtgttcttttgcataaattgttgtctttttccatttggggtgcgttggattgacatggatcagGTCATCAGGATGATGAGTGATTACAAGGTGGAGACGGTCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA

upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G01940.2 (Glycine max), 3'ss of exon 1
-------------------------------gtggcgtgattcggtgattttttctataggatttcgatgcggattccttgatctgcgtttctactgcatgt-tgatgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
                                 |   | |    ||| | ||||  |||   | | |           |||   ||||||       ||||  | | | |  |||||||||||| || ||||||||||| | ||| |||||||| ||||| ||||||||||| ||||| |  || || || || |
gtgatcttttccgaattttttttttgtattttcgatttcagaaagtgttcttttgcataaattgttgtctttttccatttggggtgcgttggattgacatggatcaggtcatcagGATGATGAGTGATTACAAGGTGGAGACGGTCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA

upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G37650.1 (Glycine max), 3'ss of exon 1
---------------------------------gtggcgtgattcggtgattttttctataggatttcgatgcggattcc--ttgatctgcgtt---tctac-tgcatgttgatgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
                                   |   | ||   ||| | |||| ||||   ||    |     ||||  |||   || |||   |  || || ||   |    |  |||||||||||| || ||||||||||| | | | |||||||| ||||| ||||||||||| ||||| |  || || || || |
gtctgtgatcttttcggaattgtttttgtattttcgatttcataaagtgttcttttgtataaatttgttgtcttttttccatttggggtgtgttggattgacatggatcaggtcatcatcagGATGATGAGTGATTACAAGGTGGAGACGATCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA

upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA16G03940.2 (Glycine max), 3'ss of exon 1
------------------------------------------------------------------gtggcgtgattcggtgatt---ttttctataggatttcgatgcggattccttgatctgcgtttctactgcatgttgatgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
                                                                   |    |  || ||||  |   |||      |||||  | |   ||||  ||| | ||  ||| |  |     |  ||      ||||||||||| |||||||||||||| ||| | || ||||| ||||| ||||| | |||  | || | ||| || || || |
gttaatccctaatttcttctgttttcctttttttttttacctttcatttccattcaagttataatctttttctatttgggtgtctaagtttgactctggattctgtttttgattg-ttgttttgt-tttttgtttttcctcaat--taatagGATGATGAGTGACTACAAGGTGGAGATGATTAATGATGGAATGCAAGAGTTTTATGTGCACTTCCATGGACCCAATGAGA

upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA07G07540.1 (Glycine max), 3'ss of exon 1
---------------------------------------------gtggcgtgattcggtgattttttctataggatttcgatgcggattccttgatctgcgtttctactgcatgttgatgcct------gcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
                                              |   || ||    |  |||||   || || | || | |       ||||||     |||  |    |  ||  |   |        ||||||||||| |||||||||||||| ||| | || ||||| ||||| ||||| | |||  | || | ||| || || || |
gttaatccaccacttcttctgttttccttttcccttctatttccattaaagttataattttttttttctaattgggtgtctaagtttgactcttgattctgattttgatgttagtttttttttttaattaatagGATGATGAGTGACTACAAGGTGGAGATGATTAATGATGGAATGCAAGAGTTTTATGTGCATTTCCATGGACCCAATGAGA

upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT1G63800.1 (Arabidopsis thaliana), 3'ss of exon 1
-------------------------------------gtggcgtgattcggtgattttttctataggatttcgatgcggattccttgatctgcgtttctactgcatgttgatgcctg----cagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
                                      ||   |    |   |||||||| | ||   |||   ||  ||||  |   ||    ||| |        ||||||   |     ||||||||||| |||||||||||||| ||| | || ||||| ||||| ||||||||||| |||||  |||| || || || |
gtaatttttttaatcttattatcttatcagtttattcttgattttgagctccgattttttttctaatgtttgtttggcgatt--tgattcgatttttttgtgatgatttgatgtgagagtttagGATGATGAGTGACTACAAGGTGGAGATGATCAATGATGGCATGCAAGAGTTCTTTGTCGAATTCAGTGGACCCAAAGACA

upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv02s0025g00070.t01 (Vitis vinifera), 3'ss of exon 1
gtggcgtgattcggtgat-tttttctataggatttcgatgcggattccttgatctgcgtttctactgcatgttgatgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
||    |  || | ||   ||||| | |  | |||   |  |||||   | || || |||| |  |   |||   |   | |||||||||||| || || |||||||| |||||||| ||||| ||||| ||||||| ||| || || | ||| ||    || |
gtaagtttttttgttgggatttttttgtgtgttttttttaaggatt---taatttgggttttttgtcattgtgttttgttccagGATGATGAGTGATTATAAGGTGGAGATGGTGAATGATGGCATGCAAGAGTTCTATGTCGATTTCCATGGACCCGGTGACA

upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S37_166V6.1 (Physcomitrella patens), 3'ss of exon 1
gtggcgtgattcggtgattttttctataggatttcgatgcggattccttgatctgc--gtttctactgcatgttg----------atgcctg------cagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
|    ||| |  | | | ||||  | |  || || | ||||| ||     ||| ||  |||  |  || || |            |||  ||       ||||||||||| ||||||||||| || |||||||| ||||| |||   || |||| ||| || |||| ||| ||    || |
ggattgtgttgtgattacttttcttgttcgaatt-ggtgcggtttggggaatcggcaagttgttgttgtatctgacgattcaagaatgtgtgattgggtagGATGATGAGTGACTACAAGGTCGAGATGGTGAATGATGGAATGAGCGAATTCTATGTGGAGTTTCATGGACCGCGTGAGA

upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ23672 (Selaginella moellendorffii), 3'ss of exon 1
----------------------------------------------gtggc----gtgattcggtgattttttctataggatttcgatgcggattccttgatctgcgtttctactgcatgttgatgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
                                              |||||       |  |  |  || ||    |      ||  |||  |||| ||| |     ||| | || |   ||  |   | |||||||||||| |||||||||||||| ||||| |||||||||||| | |||||   ||| || || | ||| |||   || |
gtgagtctcgcctcctctcgaatttcaattccttcttcgctctccagtggctatgaaaaacctctctttcttcgctttcttcctctctgctaattcattgcttcttctttttgcttcccattcctctttccagGATGATGAGTGACTACAAGGTGGAGATGGTAAACGATGGGATGAACGAGTTTAATGTGGAGTTCCATGGACCTCGGGATA

upper sequence: GRMZM2G150867_T01 (Zea mays), 3'ss of exon 1
lower sequence: EFJ34378 (Selaginella moellendorffii), 3'ss of exon 1
-----------------------------------------gtggcgtgattcggtgattttttctataggatttcgatgcggattccttgatctgcgtttctactgcatgttgatgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
                                          |   |||   |  |  || ||    |      ||  |||  |||| ||| |     ||| | || |   ||  |   | |||||||||||| |||||||||||||| ||||| |||||||||||| | |||||   ||| || || | ||| |||   || |
gtgagtctcgcctcctctcgaatttcaattccttcttcgctctccagtggacctctctttcttcgctttcttcctctctgctaattcattgcttcttctttttgcttcccattcctctttccagGATGATGAGTGACTACAAGGTGGAGATGGTAAACGATGGGATGAACGAGTTTAATGTGGAGTTCCATGGACCTCGGGATA

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|211541018|gb|FL000893.1|FL000893
EST:     TCTCCAAGCAAGCGCCGGGAGATGGACCTCATG-A------A-G---CT-                         GATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTT
genomic: TCTCCAAGCAAGCGCCGGGAGATGGACCTCATGAAGCTGTGAGGATTCTGgtggcgtgat ... atgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTT
EST: gi|211427763|gb|FL233521.1|FL233521
EST:     TCTCCAAGCAAGCGCCGGGAGATGGACCTCATGAAGCTGTGAGGATTCTG                         GATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTT
genomic: TCTCCAAGCAAGCGCCGGGAGATGGACCTCATGAAGCTGTGAGGATTCTGgtggcgtgat ... atgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTT
EST: gi|37394410|gb|CF634479.1|CF634479
EST:     TCTCCAAGCAAGCGCCGGGAGATGGACCTCATG-A------A-G---CT-                         GATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTT
genomic: TCTCCAAGCAAGCGCCGGGAGATGGACCTCATGAAGCTGTGAGGATTCTGgtggcgtgat ... atgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatttcgatgcggattccttgatctgcgtttctactgcatgttgatgcctgcagGATGATGAGCGACTACAAGGTGGATATGGTGAACGATGGGATGCAGGAGTTCTTTGTTGAATTTCGTGGGCCTAACGAAA
                                        tgttgat  putative branch site (score: 4)