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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttcatctttgttactaaattccacttgtagtttttgtacacaagttctgtggctaatgtaccttattattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGTAATGCGTGGGGATTTCGATCGCGCGAATGATGTTTTATCATCTATACCA

Basic information

species Zea mays
transcript GRMZM2G141587_T02
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141587_T02 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 3'ss of exon 16
gtgagttc---atctttgttactaaattccacttgtagtttttgtacacaagttctgtggctaatgtaccttattattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGTAATGCGTGGGGATTTCGATCGCGCGAATGATGTTTTATCATCTATACCA
||||||      | | || ||    ||   | | | |        |   || ||||| || |||  |   || ||| ||||||||||||||||||||||||||||||| | |||| || ||||||||||||||||||||||| || |||||||| || || | | ||||| |||||||||||
gtgagtcttggttgtctggtatcgtatcatattcggaagcc--acaatgaacttctgaggttaacttgttttcttactgcagTGTTGTGGGGTATACTTTACTCCTTACTATGATTGAGTATAAAACACTTGTAATGCGTGGAGACTTCGATCGTGCAAACGCTCTTTTACCATCTATACCA

upper sequence: GRMZM2G141587_T02 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os02g11840.1 (Oryza sativa), 3'ss of exon 7
gtgagttc---atctttgttactaaattccact-tgtagtttttgtacacaagttctgtggctaatgtaccttattattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGTAATGCGTGGGGATTTCGATCGCGCGAATGATGTTTTATCATCTATACCA
||||||      | | || || |  ||   | | || ||      |  ||   ||||| || |||  |   || ||| |||||||||||||||||||||||||||||||   |||| || ||||||||||||||||||||||| || |||||||| || || | | ||||| |||||||||||
gtgagtcttggttgtctggtattgtatcatattctgaagccacaatgaac---ttctgaggttaacttgttttcttactgcagTGTTGTGGGGTATACTTTACTCCTTACCATGATTGAGTATAAAACACTTGTAATGCGTGGAGACTTCGATCGTGCAAACGCTCTTTTACCATCTATACCA

upper sequence: GRMZM2G141587_T02 (Zea mays), 3'ss of exon 16
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 16
----gtgagttc---atctttgttactaaattccacttgtagtt-tttgtacacaagttctgtggctaatgtaccttattat-tgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGTAATGCGTGGGGATTTCGATCGCGCGAATGATGTTTTATCATCTATACCA
    | ||| |    | ||    | ||  | ||    ||   || ||  |  |   | |||     | || ||  ||||  | ||||||||| |||| ||||| ||||| || | |||||| || || || ||||||||||||||||| || ||  | || || | |||  ||||| | |  || || 
gtgagggagcttgggagctgcacttctgcaatctgactgcttttgttcttgtaattgatcta-aatttatttatgttatcttatgcagTGTTATGGGATATACCTTACTTCTCAATTTGATTGAGTACAAGACACTTGTAATGCGTGGAGACTTTCAACGTGCAAGTGAAATTTTACCTTTGATTCCT

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|18384334|gb|BM417533.1|BM417533
EST:     GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA                         TGTTGTGTGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
genomic: GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAAgtgagttcat ... attattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
EST: gi|18384433|gb|BM417632.1|BM417632
EST:     GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCCATTTAA                         TGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
genomic: GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAAgtgagttcat ... attattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
EST: gi|211291668|gb|FL235608.1|FL235608
EST:     TTATTGATAAGCAATTTAA                         TGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAGACACTTGT
genomic: TTATTGATAAGCAATTTAAgtgagttcat ... attattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
EST: gi|22489660|gb|BU049570.1|BU049570
EST:     GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA                         TGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
genomic: GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAAgtgagttcat ... attattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
EST: gi|21809537|gb|BQ667855.1|BQ667855
EST:     GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA                         TGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
genomic: GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAAgtgagttcat ... attattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
EST: gi|18649807|gb|BM498626.1|BM498626
EST:     GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA                         TGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
genomic: GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAAgtgagttcat ... attattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
EST: gi|18649903|gb|BM498722.1|BM498722
EST:     GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA                         TGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
genomic: GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAAgtgagttcat ... attattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
EST: gi|89106141|gb|DY576358.1|DY576358
EST:     GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA                         TGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
genomic: GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAAgtgagttcat ... attattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
EST: gi|18963894|gb|BM660690.1|BM660690
EST:     GGATATCNTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCCATTTAA                         TGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT
genomic: GGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAAgtgagttcat ... attattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccacttgtagtttttgtacacaagttctgtggctaatgtaccttattattgcagTGTTGTGGGGTATACTTTACTCCTTAGTTTGATCGAATATAAAACACTTGTAATGCGTGGGGATTTCGATCGCGCGAATGATGTTTTATCATCTATACCA
                               ggctaat  putative branch site (score: 3)
                                         ccttatt  putative PPT
                                           ttattatt  TA-rich tract