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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttcctttttcacccactcctctctattgctcctgtgttatatatcttatggtgcaatcttgtaaactcaagagctgtttcttgtgtctaatgccaccattgtagatctatccatgatgaacaaggctgcatggcatgatcagccatgattaaccatatacgttttttttttctgtctctgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAGGTAGCCATCAATGGGTTCGGTAGGATTGGTAGGAACTTCTTGAGGTGTT

Basic information

species Arabidopsis thaliana
transcript AT1G12900.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G12900.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA19G28240.1 (Glycine max), 3'ss of exon 2
gtgagttcctttttcacccactcctctctattgctcctgtgttatatatcttatggtgcaatcttgtaaactcaagagctgtttcttgtgtctaatgccaccattgtagatctatccatgatgaacaaggctgcatggcatgatcagccatgattaaccatatacgttttttttttctgtctctgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAGGTAGCCATCAATGGGTTCGGTAGGATTGGTAGGAACTTCTTGAGGTGTT
                                                                       | | ||  ||||  || |   | |||  | |     | |  ||   | ||  |  ||   ||  ||   || | | | ||| |  | | |||| ||  ||||                | || |  |||||| ||| ||||||| ||| || ||||| || || ||  | ||||| ||||| || ||||| || |||||||| ||||||||||||||||| |
-----------------------------------------------------------------------taatgaattgttaattatacatgatggtatc--caaaaagttaatta-gaaaagtaaaaatg--tgaagtgtttaacaatgttgcatc-tatatgtactttt----------------gaagGTTGGAAGCAGTGGAGGATACAAGAAGGGTGTGACAGAAGCAAAACTGAAGGTTGCCATAAACGGGTTTGGAAGGATTGGAAGGAACTTCTTGAGGTGCT

upper sequence: AT1G12900.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv14s0068g00680.t01 (Vitis vinifera), 3'ss of exon 2
gtgagttcctttttcacccactcctctctattgctcctgtgttatatatcttatggtgcaatcttgtaaactcaagagctgtttcttgtgtctaatgccaccattgtagatctatccatgatgaacaaggctgcatggcatgatcagccatgattaaccatatacgttttttttttctgtctctgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAGGTAGCCATCAATGGGTTCGGTAGGATTGGTAGGAACTTCTTGAGGTGTT
                                                                                     | || |   |||  |   |||   |  |    || ||| | || | ||| |    || |  |    | |    | | |  ||| |   |   | |   ||||  |  |   || | ||  || |||||||| ||||| || || || || ||| ||||||| ||||| ||||| || || |||||||| ||||||||||||||||   
---------------------------------------------------------------------------------acattggtatactatgttat-gttgggcacttggaaat-atgtataatgttgcttcttgtgttggg----ggtggcacttgtgagttatgaat---tatgattgtgaagGTGGGAAGCAACAGCGGGGGATACAGAAAAGGAGTAACAGAAGCAAAGCTAAAGGTTGCCATAAATGGATTTGGGAGGATTGGGAGGAACTTCTTGAGGT---

upper sequence: AT1G12900.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S86_156V6.1 (Physcomitrella patens), 3'ss of exon 2
gtgagttcctttttcacccactcctctctattgctcctgtgttatatatcttatggtgcaatcttgtaaactcaagagctgtttcttgtgtctaatgccac-cattgtagatctatccatgatgaacaaggctgcatggcatgatcagccatgattaaccatatacgttttttttttctgtctctgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAGGTAGCCATCAATGGGTTCGGTAGGATTGGTAGGAACTTCTTGAGGTGTT---
                            |||  |   || |||    |     ||     |||||      || |    | || ||  | |   | ||     |  ||  ||| |||             | |           |      ||  |   || ||  |||  |  |||   |   |||| |||||      |||   || |    ||  |  |  || |||||||||||||| ||||| ||||||||||| |||||  | || ||| | |||||| |  | || |   
---------------------------gtatgacatttgagttgcg-actaattgacttcatctttgcggttcgatgagtcttcctcattttgtacgctgtgtaacgtgaatcaatctt-----------gttatgaaatccagttgctggtgcatgttcacatcggttaatcatttgactggttgtggtgtagGCTGCCAGCTCCGGCGC---CACCAGGGCCGTCACCGAGGCCAAGATTAAGGTCGCCATCAATGGATTCGGACGCATCGGTCGTAACTTCGTCCGCTGCTGGC

upper sequence: AT1G12900.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S135_21V6.2 (Physcomitrella patens), 3'ss of exon 2
gtgagttcctttttcacccactcctctctattgctcctgtgttatatatcttatggtgcaatcttgtaaactcaagagctgtttcttgtgtctaatgccaccattgtagatctatccatgatgaacaaggctgcatggca-tgat-cagcca--tgatt---aaccatatacgttttttttttctgtctctgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAGGTAGCCATCAATGGGTTCGGTAGGATTGGTAGGAACTTCTTGAGGTGTT---
                                                                                                        | |  | |||||  | |   | || | | ||| | | | || ||||||  || |    | |||||  || |    ||  |   |  ||  ||| ||      |||  ||| |     | ||  |  || |||||||||||||| ||||| ||||||||||| |||||  | || ||  | |||||| |  | || |   
-------------------------------------------------------------------------------------------------------gtatgtacctatctttta-agataatgtttcattgtactaatacagccacttgctccaaagccataatcgctgacattgccgtaccgtgaattgcagTCCGCTAGCTCTGGAGC---TAAGAGGGCCGTCACCGAGGCCAAGATCAAGGTCGCCATCAATGGATTCGGACGTATCGGACGCAACTTCGTCCGCTGCTGGC

upper sequence: AT1G12900.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S135_29V6.2 (Physcomitrella patens), 3'ss of exon 2
gtgagttcctttttcacccactcctctctattgctcctgtgttatatatcttatggtgcaatcttgtaaactcaagagctgtttcttgtgtctaatgcc-accattgtagatctatccatgatgaacaaggctgcatggcatgatcagccatgattaaccatatacgttttttttttctgtctctgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAGGTAGCCATCAATGGGTTCGGTAGGATTGGTAGGAACTTCTTGAGGTGTT---
                                                                 |||   |     |||    |  || | |  || | |||  |  |     | |  | |||       || |||| | |         | ||||| |    |  || |  | |     |  | || || ||      |||  ||| |     | ||  |  || |||||||||||||| ||||| ||||||||||| |||||  | || ||  | |||||| |  | || |   
-----------------------------------------------------------------gtacgtttcgtcgct----ccagtatttcgtgtctaccggttcaagctcaccttttatgctttttacttcatgccgt---------tcattaagcgcgga-attctaatgtggccacattctgatgcagGCTGCTAGCTCTGGAGC---TAAGAGGGCCGTCACCGAGGCCAAGATCAAGGTTGCCATCAATGGATTCGGACGTATCGGACGCAACTTCGTCCGCTGCTGGC

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|116451131|gb|EG493723.1|EG493723
EST:     GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATATAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125209775|gb|EL224729.1|EL224729
EST:     GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|124888672|gb|EH967574.1|EH967574
EST:     TTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: TTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|164035484|gb|ES182004.1|ES182004
EST:     CTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: CTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|116442534|gb|EG485126.1|EG485126
EST:     GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125292425|gb|EL306510.1|EL306510
EST:     CGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCG
genomic: CGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCG
EST: gi|125192141|gb|EL207095.1|EL207095
EST:     CCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: CCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125277968|gb|EL292053.1|EL292053
EST:     CCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: CCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125259046|gb|EL273131.1|EL273131
EST:     TTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: TTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125227581|gb|EL241666.1|EL241666
EST:     TTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: TTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|116473085|gb|EG515677.1|EG515677
EST:     GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|124908523|gb|EH982603.1|EH982603
EST:     TCTTCTTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCTA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGC
genomic: TCTTC-TTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGC-Agtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGC
EST: gi|124862917|gb|EH947354.1|EH947354
EST:     TCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: TCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125017256|gb|EL089525.1|EL089525
EST:     GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAG
genomic: GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAG
EST: gi|124746505|gb|EH836833.1|EH836833
EST:     GTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGTCAAGATAAAG
genomic: GTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125283363|gb|EL297448.1|EL297448
EST:     CAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: CAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|124731876|gb|EH823278.1|EH823278
EST:     GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125314047|gb|EL328132.1|EL328132
EST:     CTTCCGATGAGTTTTGTTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: CTTCCGATGAG-TTTG-TTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125273219|gb|EL287304.1|EL287304
EST:     CTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: CTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|124886321|gb|EH965223.1|EH965223
EST:     AGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: AGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|124891932|gb|EH970834.1|EH970834
EST:     AAACTTCTGCA                         ATGAGAAGCAGTGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: AAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125287568|gb|EL301653.1|EL301653
EST:     AGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGAATAAA
genomic: AGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGA-TAAA
EST: gi|125023695|gb|EL095964.1|EL095964
EST:     GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTG
genomic: GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTG
EST: gi|125225364|gb|EL239449.1|EL239449
EST:     TTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: TTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125022950|gb|EL095219.1|EL095219
EST:     TTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: TTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|124813630|gb|EH898496.1|EH898496
EST:     GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGA
genomic: GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGA
EST: gi|125023792|gb|EL096061.1|EL096061
EST:     GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGG
genomic: GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGG
EST: gi|125147769|gb|EL181814.1|EL181814
EST:     GATCTTCTTCCGATGAGTTTGTTTCCTCCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAAGGGG
genomic: GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAA-GGGG
EST: gi|116473086|gb|EG515678.1|EG515678
EST:     GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: GATCTTCTTCCGATGAGTTTGTTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125038567|gb|EL110836.1|EL110836
EST:     TTTCCTTCGTCAGTTTCCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: TTTCCTTCGTCAGTTTCCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
EST: gi|125211377|gb|EL226331.1|EL226331
EST:     CCAAACTTCTGCA                         ATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG
genomic: CCAAACTTCTGCAgtgagttcct ... tgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgatcagccatgattaaccatatacgttttttttttctgtctctgtgttgtagATGAGAAGCAATGGTGGATACAGGAAAGGGGTGACCGAGGCCAAGATAAAGGTAGCCATCAATGGGTTCGGTAGGATTGGTAGGAACTTCTTGAGGTGTT
             gattaac  putative branch site (score: 2)
                            ttttttttttctgtct  putative PPT
                     atatacgttttttttt  TA-rich tract