Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttcttcaggaagaaatttaggtttgtttgtaatacgtcatgtgctttatggagctctataatataccatctaatctttttcactgacctactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGCAACTATAACTGATCTGCAACTCAACCTTGTGGGATCTGTATTGTCCCTA

Basic information

species Zea mays
transcript GRMZM2G081848_T05
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G081848_T05 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g07310.1 (Oryza sativa), 3'ss of exon 4
-----------------------ttttcttcaggaagaaattt---aggtttgtttgtaatacgtcatgtgctttatggagctctataatataccatctaatctttttcac-----tgacct-actgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGCAACTATAACTGATCTGCAACTCAACCTTGTGGGATCTGTATTGTCCCTA
                        ||| |||||   || | ||   | |||||| | ||||||||| ||| ||||||| ||||  | ||  || | ||| || |||||        || | | ||||||||||||||| ||| |||| ||||||||||| |||||| |||||||||| ||||||||| | ||||| ||||| || ||   ||||||||||||  ||||  | 
gtttgtatttaatacttcatgtcctttattcagtttgataattatgaagtttgtatttaatacgtcttgtcctttatgcagcttgagaaattatcttctgattttttttttatttttggctttactgtgcagTCGGAATATCCAGCTCTCCCTTAGTGTTCTCCTTTTTGGTGTTGGAGTTGCAACTGTGACTGACCTGCAGCTTAATGCTGTGGGATCTGTCCTGTCTTTG
















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|89251400|gb|DY623186.1|DY623186
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCCAGCTTTCCC
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCC
EST: gi|148967838|gb|EE019130.2|EE019130
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
EST: gi|148960883|gb|EE011564.2|EE011564
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
EST: gi|148997312|gb|EE035807.2|EE035807
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
EST: gi|50322320|gb|CO517446.1|CO517446
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
EST: gi|149110398|gb|EE190395.2|EE190395
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
EST: gi|31358400|gb|CD442757.1|CD442757
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
EST: gi|71328578|gb|DR800947.1|DR800947
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
EST: gi|148936002|gb|EC880058.2|EC880058
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAA-TTTAG                         TCGGAACATCAAAGCTT-CC-TTAGTGTGCTCCTTCTTGGGTGT-GGTGTT
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAA-GCTTTCCCTTAGTGTGCTCCTTCTTGG-TGTTGGTGTT
EST: gi|149102837|gb|EE288179.2|EE288179
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGGTGGTGTTGC
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
EST: gi|149105555|gb|EE291088.2|EE291088
EST:     TTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAAGAA-TTTAG                         TCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGGTTGGTGT-
genomic: TTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAA-GAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTG-TTGGTGTT
EST: gi|87152152|gb|DY396941.1|DY396941
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCAAGCTTTCCCTTAGTGTGCTCCT
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCT
EST: gi|148995261|gb|EE034502.2|EE034502
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGC
EST: gi|149097659|gb|EE183556.2|EE183556
EST:     ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAG                         TCGGAACATCAAGCTTTCCCTTAGT
genomic: ATTCCCTGTACTGTTATACTGGAGACCCTTTTCTTCAGGAAGAAATTTAGgtttgtttgt ... tactgtgcagTCGGAACATCAAGCTTTCCCTTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttatggagctctataatataccatctaatctttttcactgacctactgtgcagTCGGAACATCAAGCTTTCCCTTAGTGTGCTCCTTCTTGGTGTTGGTGTTGCAACTATAACTGATCTGCAACTCAACCTTGTGGGATCTGTATTGTCCCTA
                                     cactgac  putative branch site (score: 2)
           tctataatata  TA-rich tract