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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcttcatgcacaatttgtatttaagttcacacgtttctcagtttggtttctatatctttgttgaaaggaactaataatcttatgcgttctgttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGGACCTGGCAATTTGTTATTGTTAGGCCAGTATGTTCCATTCTGATTATTG

Basic information

species Zea mays
transcript GRMZM2G025242_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G025242_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g32230.2 (Oryza sativa), 3'ss of exon 3
--tcttcatgcacaatttgtatttaagttcacacgtttctcagtttggtttctatatctttgttgaaaggaactaataatcttatg-cgttctgttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGGACCTGGCAATTTGTTATTGTTAGGCCAGTATGTTCCATTCTGATTATTG
    |   |    | || |  |||| | |      || ||  | ||   |||||| | ||     ||||||| |||||   || ||  ||| || ||||||||||||||||||| ||||||||||| |||||| |||||||||||||||| |||||||||||||||||| ||||||||||  ||||  ||||||| || ||| 
aacttaagtttgtagttagactttagggtgttctattactt-gcttcacttctatctgttca--aaaaggaattaatatatttgtgatgttttgctatggcagCCCCGCAATGTTCGATTGGAGCATAAAACACTGAAGCTTCTGAAGTACTGGACCTGGCAATTTGTTGTTGTTAGGCCCATATGCGCCATTCTAATGATTA

upper sequence: GRMZM2G025242_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA15G07390.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------tcttcatgcacaatttgtatttaagttcacacgtttctcagtttggtttctatatctttgttgaaa-ggaactaataatcttatgcgttctgttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGGACCTGGCAATTTGTTATTGTTAGGCCAGTATGTTCCATTCTGATTATTG
                                               |      | |  | ||  || ||    ||     ||  || | ||  |   || | | || ||  | || | | | ||| || |   |     |   ||||||  | | ||| ||  || | ||| | |  ||||||||||| || |||||||| ||||| |||||| ||||  | |||||||||||| ||||||| ||||
gtatggcctgcttctgcagtctgcacacttagaattgtactaaaattttggggagaatgaatttgatctactaacaagaaatttgca-tatgtatatgatgtttgtgatgtcatggtattcacaattttgtaaatcgatcttctgcagCCTTGTACTGTTCGCCTGAACCACCATAATTTGAAGCTTCTAAAATATTGGACATGGCAGTTTGTTGTTGTCCGTCCAGTATGTTCCTTTCTGATGATTG

upper sequence: GRMZM2G025242_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G31920.1 (Glycine max), 3'ss of exon 2
--------------------------------------------tcttcatgcacaat---ttgtatttaagttcacacgtttctcagtttggtttctatatctttgttgaaagga-actaataatcttatgcgttctgttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGGACCTGGCAATTTGTTATTGTTAGGCCAGTATGTTCCATTCTGATTATTG
                                              ||   ||| |||   ||  || ||    ||     ||  ||| |   | |  || |   || ||  |  | | | | ||| || |   ||    |   |||||| || | ||| ||  || | ||| | |  ||||||||||| || |||||||| ||||| |||||| ||||  | |||||||||||  ||||||| ||||
gtatggcttgcttctgcagtctgcacactttgagttgtgctaaaattttgggcagaatgaatttgatctactcacaagaaatttgcagatgtatatg-atgttggtgatgtcataatattcacaattttgtaaattgatcttctgcagCCTCGTACTGTTCGGCTGAACCACCATAATTTGAAGCTTCTAAAATATTGGACATGGCAGTTTGTTGTTGTCCGTCCAGTATGTTCTGTTCTGATGATTG

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|15426838|gb|BI542660.1|BI542660
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAGACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|32836133|gb|CD975811.1|CD975811
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|32863425|gb|CF003107.1|CF003107
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|211387059|gb|FL031628.1|FL031628
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAGACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|32855966|gb|CD995647.1|CD995647
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGCCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|211387062|gb|FL031631.1|FL031631
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|32909613|gb|CF014425.1|CF014425
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|211387060|gb|FL031629.1|FL031629
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAGACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|18648719|gb|BM497538.1|BM497538
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAGACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|211479367|gb|FL401490.1|FL401490
EST:     AATCAAAGGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCCGATTGGAGCACAAAACATTGAACCTTCTGAAATATTG
genomic: AATCAAAGGG-AGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCC-GATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTG
EST: gi|29945106|gb|CB815472.1|CB815472
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|91875864|gb|EB405821.1|EB405821
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|211387063|gb|FL031632.1|FL031632
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTSTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAGACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|33101764|gb|CF061724.1|CF061724
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAGACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|32831960|gb|CD971638.1|CD971638
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|71770673|gb|DR968610.1|DR968610
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|211387065|gb|FL031634.1|FL031634
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAGACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|45847047|gb|CN070990.1|CN070990
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAGACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|116821502|gb|EC864822.1|EC864822
EST:     AATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTTCCTG                         ACCCGAAATGTCCGATTGGAGCACAAGACATTGGAAGCTTCTGA
genomic: AATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTT-CCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTG-AAGCTTCTGA
EST: gi|18450759|gb|BM429037.1|BM429037
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAGACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG
EST: gi|18648718|gb|BM497537.1|BM497537
EST:     AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTG                         CCCCGCAATGTCCGATTGGAGCACAAGACATTGAAGCTTCTGAAGTATTGG
genomic: AAATCAAAGGGAGGGTGCTTCATCATTCCTTCCCTGTTTCTCTTTTCCTGgtacctttct ... gttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttctatatctttgttgaaaggaactaataatcttatgcgttctgttatggcagCCCCGCAATGTCCGATTGGAGCACAAAACATTGAAGCTTCTGAAGTATTGGACCTGGCAATTTGTTATTGTTAGGCCAGTATGTTCCATTCTGATTATTG
                       aactaat  putative branch site (score: 2)
                                         ttctgtt  putative PPT
                       aactaataatcttat  TA-rich tract