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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttaagtctcaatcgtgttactttttgcagaatttcactgaacttttgggtaacgtattcataactactcatgtggatcattggttatgaaaaccgtactgctttctttgtgacaagacagtgagatttctgttctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCCTAAC

Basic information

species Zea mays
transcript GRMZM2G092988_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G092988_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g09460.1 (Oryza sativa), 3'ss of exon 4
gttagttaagtctcaatcgtgttactttttgcagaatttcactgaacttttgggtaacgtattcataactactcatgtggatcattggttatgaaaaccgtactgctttctttgtgacaagacagtgagatttctgttctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCCTAAC
                                            | | |  || |     |||  | |  | ||| |    | | |  |  | | | | |    ||  | || || |  || || | |   | |||||| |||| |||||||||||||||||||||||||||||||||| || |||||||||||| |||| ||
------------------------------------------ctagcatacggttttttgatttgttaagagtcaagactgt-actattcttcagatcag----gccatattagtcaatagtca-taactgtgctgttcaaattgcagGACCTGATGACATGCCAGCACATATTAAATCATCAATGTTTGGTTGTGCCCTGAC

upper sequence: GRMZM2G092988_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA15G17340.2 (Glycine max), 3'ss of exon 2
gttagttaagtctcaatcgtgttactttttgcagaatttcactgaacttttgggtaacgtattcataactactcatgtggatcattggttatgaaaaccgtactgctttctttgtgacaagacagtgagatttctgttctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCCTAAC
                                  || |    ||   | |    |   | |   ||  | |||    |||||  ||| |  |||  ||    | |||   ||  |  | | | | ||          | ||||| |||| || ||||||||||| |||||||||||||| || |||||||||||| | || | 
---------------------------------caactgtgttggcttgtacattcttgcaaaaatgtcaactatcttggat--ttgat--tgatgacatgccagctcatttaatttctacata-tg----------tataatttcagGGCCAGATGACATGCCGGCACATATTAAATCGTCGATGTTTGGTTGTGCACTCAT

upper sequence: GRMZM2G092988_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G34680.2 (Glycine max), 3'ss of exon 4
gttagttaagtctcaatcgtgttactttttgcagaatttcactgaacttttgggtaacgtattcataactactcatgtggatcattg--gttatgaaaaccgtactgctttctttgtgacaagacagtgagatttctgttctaa---ttacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCCTAAC
                                                      |||   | |  | |||  | | ||| |    ||  |||| |      ||  | | || |     |||      |  |||||   ||  ||   || |||| || |||||||||||||| ||||||||||| || |||||||||||| | || ||
-----------------------------------------------------ataagtcagttgttacttattaagtgtaatgctgctgttaggctgttagttttccattataatatacatatttttctgatttggatttgaaattttgcagGGCCAGATGACATGCCAGCTCATATTAAATCATCGATGTTTGGTTGTACACTCAC

upper sequence: GRMZM2G092988_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv18s0122g00190.t01 (Vitis vinifera), 3'ss of exon 4
gttagttaagtctcaatcgtgttactttttgcagaatttcactgaacttttgggtaacgtattcataactactcatgtggatcattggttatga-aaaccgtac-tgctttctttgtgacaagacag-tgagatttctgttctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCCTAAC
                                                  ||   ||  | |  |||| |  | |    |   |     || || |||  || | |      ||||  |||| |  | |   |   |||      || |||| || ||||||||||||||||| || |||||||| |||||||||||    || ||
--------------------------------------------------tgacaaatat-tagataaatgataaaaaaggaaagcaaataagagaaattgttcataagaagtttgccacaaaattgattctaaccctgcaaccttttcagGTCCGGATGACATGCCAGCACACATCAAATCTTCAATGTTTGGTTGCAGTCTCAC

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|37379268|gb|CF626373.1|CF626373
EST:     GGCCACAATGCTCCTTGGAAACACACTATGGAAG                         GACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
genomic: GGCCACAATGCTCCTTGGAAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
EST: gi|211194336|gb|FL162075.1|FL162075
EST:     GGCCACAATGCTCCTTGGAAACACACTATGGAAG                         GACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
genomic: GGCCACAATGCTCCTTGGAAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
EST: gi|18180641|gb|BM381851.1|BM381851
EST:     AAACACACTATGGAAG                         GACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
genomic: AAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
EST: gi|211191945|gb|FL162071.1|FL162071
EST:     GGCCACAATGCTCCTTGGAAACACACTATGGAAG                         GACCCCCCGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
genomic: GGCCACAATGCTCCTTGGAAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
EST: gi|16919476|gb|BM074210.1|BM074210
EST:     GGCCACAATGCTCCTTGGAAACACACTATGGAAG                         GACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
genomic: GGCCACAATGCTCCTTGGAAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
EST: gi|84977403|gb|DW475825.1|DW475825
EST:     GGCCACAATGCTCCTTGGAAACACACTATGGAAG                         GACCTGATGACATGCCAGCACATATTGAATCTTCTATGTTTGGTTGTTCCC
genomic: GGCCACAATGCTCCTTGGAAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
EST: gi|14245643|gb|BG874225.1|BG874225
EST:     GGCCACAATGCTCCTTGGAAACACACTATGGAAG                         GACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
genomic: GGCCACAATGCTCCTTGGAAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
EST: gi|6695846|gb|AW288954.1|AW288954
EST:     AATGCTCCTTGGAAACACACTATGGAAG                         GACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
genomic: AATGCTCCTTGGAAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
EST: gi|37381219|gb|CF627481.1|CF627481
EST:     GGCCACAATGCTCCTTGGAAACACACTATGGAAG                         GACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
genomic: GGCCACAATGCTCCTTGGAAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
EST: gi|211194338|gb|FL162077.1|FL162077
EST:     GGCCACAATGCTCCTTGGAAACACACTATGGAAG                         GACCTGATGACATGCCAGCACATATTAAATCTTCTAATGTTTGGTTGTTCC
genomic: GGCCACAATGCTCCTTGGAAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTA-TGTTTGGTTGTTCC
EST: gi|211121910|gb|FL435147.1|FL435147
EST:     GGCCACAATGCTCCTTTGGAAACACACTATGGAAG                         GACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
genomic: GGCCACAATGCTCC-TTGGAAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
EST: gi|211191948|gb|FL162074.1|FL162074
EST:     GGCCACAATGCTCCTTGGAAACACACTATGGAAG                         GACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC
genomic: GGCCACAATGCTCCTTGGAAACACACTATGGAAGgttagttaag ... ctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaccgtactgctttctttgtgacaagacagtgagatttctgttctaattacagGACCTGATGACATGCCAGCACATATTAAATCTTCTATGTTTGGTTGTTCCCTAAC
                                           ttctaat  putative branch site (score: 2)
                                     tttctgttct  CT-rich tract
                                           ttctaatta  TA-rich tract