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

gtcagtcagcacatctcagttggtgcacaccacaccacactagaagaaattcagttgccacatttagtcgtatcttaagctaaagctaatgtctcaacgcagGTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGGTGGCCGGAGGCCAAGTTCATCAGCAGCGCGTACACCGTCAGCATCCCGC

Basic information

species Zea mays
transcript GRMZM5G830545_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G830545_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g65660.1 (Oryza sativa), 3'ss of exon 5
gtcagtcagcacatc-tcagttggtgcacaccacaccacactagaagaaattcagttg---ccacatttagtcgtatcttaagctaaagctaatgtctcaacgcagGTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGGTGGCCGGAGGCCAAGTTCATCAGCAGCGCGTACACCGTCAGCATCCCGC
    ||||| ||||| | |||| ||        | |   | || || |   | ||| |    |||  | |      |||||| |    |   || ||| || |||||| ||||| ||||| || |||||  |  | ||||| |||    |||||||||||||||||||||||||||||| ||||| ||||||||| | | | ||||
----gtcagtacatcataagttcgtaactgagccccggtagtaaaatattattagtagagatcaccgtgaaattattcttaaaccgg-gtgcatttctgaatgcagGTTTATGCACAGCCCATATTTGCGACAATGGAGAGATGGATCTCCTCCCGGTGGCCGGAGGCCAAGTTCATCAACAGCGAGTACACCGTAAACGTGCCGC
















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|148982433|gb|EE028314.2|EE028314
EST:     TCGACATTGCCAACATGTGCCTCATCCTCCACCTGATCGGTGCATACCAG                         GTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGG
genomic: TCGACATTGCCAACATGTGCCTCATCCTCCACCTGATCGGTGCATACCAGgtcagtcagc ... ctcaacgcagGTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGG
EST: gi|91051424|gb|EB161842.1|EB161842
EST:     TCGACATTGCCAACATGTGCCTCATCCTCCACCTGATCGGTGCATACCAG                         GTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGG
genomic: TCGACATTGCCAACATGTGCCTCATCCTCCACCTGATCGGTGCATACCAGgtcagtcagc ... ctcaacgcagGTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGG
EST: gi|71762914|gb|DR960851.1|DR960851
EST:     TCGACATTGCCAACATGTGCCTCATCCTCCACCTGATCGGTGCATACCAG                         GTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGG
genomic: TCGACATTGCCAACATGTGCCTCATCCTCCACCTGATCGGTGCATACCAGgtcagtcagc ... ctcaacgcagGTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGG
EST: gi|89250248|gb|DY622034.1|DY622034
EST:     TCGACATTGCCAACATGTGCCTCATCCTCCACCTGATCGGTGCATACCAG                         GTATATGCGCAGCCTATCTTTGTTTCGGTTGAGAGGTGGGCTGCCTCCCGG
genomic: TCGACATTGCCAACATGTGCCTCATCCTCCACCTGATCGGTGCATACCAGgtcagtcagc ... ctcaacgcagGTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGG
EST: gi|149007853|gb|EE040282.2|EE040282
EST:     TCGACATTGCCAACATGTGCCTCATCCTCCACCTGATCGGTGCATACCAG                         GTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGG
genomic: TCGACATTGCCAACATGTGCCTCATCCTCCACCTGATCGGTGCATACCAGgtcagtcagc ... ctcaacgcagGTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattcagttgccacatttagtcgtatcttaagctaaagctaatgtctcaacgcagGTATATGCGCAGCCTATCTTTGCTTCGGTTGAGAGGTGGGCTGCCTCCCGGTGGCCGGAGGCCAAGTTCATCAGCAGCGCGTACACCGTCAGCATCCCGC
                                    agctaat  putative branch site (score: 3)
                       tatcttaa  TA-rich tract