Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactggcttattttctcttaacaattttttttggccttgccgtgagccctacattttccgattcaatcaacctagctgacttagctcattgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGACTTGTTAGCTGTAGTTGAATGAATTTTACCATGAAAATTTCGGACTTACC

Basic information

species Zea mays
transcript GRMZM2G050961_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G050961_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os10g41710.1 (Oryza sativa), 3'ss of exon 5
------------------------------------------------------------------------------------------gtaactggcttattttctcttaacaattttttttggcct---tgccgtgagccctacattttccgattcaatcaacctagctgacttagctcattgtgt---tgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGACTTGTTAGCTGTAGTTGAATGAATTTTACCATGAAAATTTCGGACTTACC-----
                                                                                          | |  || |   |  |    |||| | | |    ||      | |  ||     |    |||  | | || ||| |  | |   | | |       |||   || ||||||| || ||||| |||||   |||||||||||||||||||||||| ||  ||||||| || ||||||||| ||||  |   |||||  |||| |  ||     
gtaaatgaattggcttctccctaacggatacattttgtggtctttctcctaagtactccctccgtcccaaaaaaaaggcaacctagaaggggatgtgacccctcctagtataacgaatctgaaaggagggagtacgatgccttttttggtttttgttccagtcatctgaacgctcatggtattgcatgtacttgcagGTGGACCTGGGTACCGATGA---GAAGCACTGCTTCTGCCGTGAGTCTGATCTGTTAGCCGTTGTTGAATGAGTTTTTACTCCAAAAT--CGGAGTGTCCAATTC
















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|211346163|gb|FL170595.1|FL170595
EST:     TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTTCNTGC-GTGAGTCAG
genomic: TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTT-C-TGCCGTGAGTCAG
EST: gi|211509911|gb|FL437408.1|FL437408
EST:     TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST: gi|113796158|gb|DW913371.1|DW913371
EST:     AGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: AGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST: gi|6342820|gb|AW165644.1|AW165644
EST:     TAACCAGTTTGCACTTGTAGGTTCTCTTCTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGACGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST: gi|211346161|gb|FL170593.1|FL170593
EST:     TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST: gi|113799136|gb|DW919645.1|DW919645
EST:     CTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: CTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST: gi|211346162|gb|FL170594.1|FL170594
EST:     TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAG                         GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: TAACCAGTTTGCACTTGCAGGTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccctacattttccgattcaatcaacctagctgacttagctcattgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGACTTGTTAGCTGTAGTTGAATGAATTTTACCATGAAAATTTCGGACTTACC
                             agctgac  putative branch site (score: 3)
     tacatttt  TA-rich tract