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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaccatacataaatgttagcaaatatcttgtgttatatttgtccagccctaacaacatcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAAAGTTCCAACTGCACATTATGAATTTGGCGCCAATTTTTTAGATCCAAAG

Basic information

species Zea mays
transcript GRMZM2G174696_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174696_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g20750.1 (Oryza sativa), 3'ss of exon 2
gtgagaccatacataaatgttagcaaatatcttgtgttatatttgtccagccctaacaacatcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAAAGTTCCAACTGCACATTATGAATTTGGCGCCAATTTTTTAGATCCAAAG
|| ||   |      ||||||   |  | | |    || | || | | |    |    ||| | || ||||  |||||||||| ||||||||||||||| | ||| || |||||||||| |||||||||||  ||||||| ||||| || ||||||||| |||||||||||
gtaagggaaacagataatgttgatatgtgtttcactttcttttgggcaatttattctgacaacatcaacagTGTTTTTATGGGTTCCTTAGAAGTTCCATCTCAGTCAACTGAAACTATAAAAGTTCCAACATCACATTACGAATTCGGTGCCAATTTTATAGATCCAAAG

upper sequence: GRMZM2G174696_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv03s0097g00590.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------gtgagaccatacataaatgttagcaaatatctt--gtgttatatttgtc------cagccctaacaac------------atcttcca-cagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAAAGTTCCAACTGCACATTATGAATTTGGCGCCAATTTTTTAGATCCAAAG
                          |     || |  |   |||||  |  | ||||  |||||  |||| ||      ||  | | | ||             | | || | |||| | || |||||  ||   ||| ||||  | ||  | ||||||||||||||| | |||||||| |||||||| |||||||| || ||| |||| ||||||
gtagattccccctttttgtttattgttctcttcaaagtttgttgttattatttttcttttgtgttccatttttctctcatcaatcttgataatgatgccttgttaaccatctatcagCGTGTTCATGGGGCCCACTGAAATTCCTTCTCAATCCTCTGAAACTATTAAAATCCCAACTGCTCATTATGAGTTTGGCGCTAACTTTATAGACCCAAAG
















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|211089741|gb|FL262759.1|FL262759
EST:     AGATTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|31353843|gb|CD438200.1|CD438200
EST:     AGATTTGTCTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|51593036|gb|CV072182.1|CV072182
EST:     AGATTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|148944949|gb|EC890114.2|EC890114
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|211087304|gb|FL262757.1|FL262757
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAKAAGTTTTCTCT-AGC-ACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGA
EST: gi|71428447|gb|DR809497.1|DR809497
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|76294141|gb|DV033709.1|DV033709
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|211089744|gb|FL262762.1|FL262762
EST:     AGATTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|148937183|gb|EC881364.2|EC881364
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|5268993|gb|AI770957.1|AI770957
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|211402157|gb|FL346436.1|FL346436
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAG
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAG
EST: gi|149090165|gb|EE179465.2|EE179465
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|89762284|gb|DY689955.1|DY689955
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgttagcaaatatcttgtgttatatttgtccagccctaacaacatcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAAAGTTCCAACTGCACATTATGAATTTGGCGCCAATTTTTTAGATCCAAAG
                                  ccctaac  putative branch site (score: 2)
                                           catcttcc  putative PPT
                  tgttatattt  TA-rich tract