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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCCTTGAATGAGCTTTATGTCGAAGAGGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaatagccagacagtcgtgcaattcctgtcgctaccgcttttaatttaatagcatgtgttaatttattgagcag

Basic information

species Zea mays
transcript GRMZM2G057576_T01
intron # 25
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G057576_T01 (Zea mays), 5'ss of exon 25
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 5'ss of exon 26
AGCCTTGAATGAGCTTTATGTCGAAGAGGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaatagccagacagtcgtgcaattcctgtcgctaccgcttttaattt-aatagcatgtgtt---aatttattgagcag
| | ||||||||||||||||| ||||||||||| || ||||||||||||||||| ||||| ||||||||||||||||| ||||| ||||||||||||||||||||   |  | |  || |     |  |  ||   ||  | |  ||     ||||| ||| |||| |   ||     |||   |||| |||
ATCTTTGAATGAGCTTTATGTTGAAGAGGAGGATTATGAGAGACTCCGTGAATCGGTTGATATGCATGACAACTTTGATCAGATAGGTCTTGCCCAGAAGgtaaagcgattagatgattgtactgct-tattgatgttatttttccttttttttttattttgaataactaatggctggaatgccttgatcag

upper sequence: GRMZM2G057576_T01 (Zea mays), 5'ss of exon 25
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 26
AGCCTTGAATGAGCTTTATGTCGAAGAGGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaatag--ccagacagtcgtgcaattcctgtcgctaccgcttttaatttaatagcatgtgtt---aatttattgagcag
||| ||||||||||||||||| |||||||||||||| ||||||||||||||||| ||||| ||||||||||||||||| ||||| ||||||||||| ||||||||   |  |||  || |  |     | |  ||  |||  |  |  |     |||   || |||| |   ||     |||   |||| |||
AGCTTTGAATGAGCTTTATGTTGAAGAGGAGGACTATGAGAGACTCCGTGAATCGGTTGATATGCATGACAACTTTGATCAGATAGGTCTTGCCCAAAAGgtaaagcgattatatgattgtactgcttattgatgttattttt-ccttttttattttattttgaataactaatggctggaatgccttgatcag

upper sequence: GRMZM2G057576_T01 (Zea mays), 5'ss of exon 25
lower sequence: GLYMA11G06720.1 (Glycine max), 5'ss of exon 26
AGCCTTGAATGAGCTTTATGTCGAAGAGGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaat-------agccagacagtc-gtgcaattcctgtcgctaccgcttttaatttaatagcatgtgttaatt--tattgagcag----------------------
 || ||||||||  ||||||  || || || ||||| || ||||||||||||||| | ||  ||||||| ||||| || ||||| |||||||| |||||||| ||    |  ||   |       |    |||| |  |   || ||  |     |  | | |        ||  || | | ||||  ||||||   |                      
GGCTTTGAATGAAATTTATGCTGAGGAAGAAGACTATGACAGACTCCGTGAATCAATAGATCTGCATGATAACTTCGATCAGATAGGTCTTGCACAGAAGgtgaatcttacttatcttttgtcttattttgacaattagcaaaaatcgagatcagaatgttatgggaaatttaaaatatttgaattattattgattggcttcaacaatacacatgagcag

upper sequence: GRMZM2G057576_T01 (Zea mays), 5'ss of exon 25
lower sequence: GLYMA14G37510.1 (Glycine max), 5'ss of exon 24
AGCCTTGAATGAGCTTTATGTCGAAGAGGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaa------ataaaaataaaatagccaga-cagtcgtgcaattcctgtcg------ctaccgct--tttaatttaatagcatgtgttaatttattgagcag
||| ||||||||  ||||||| || ||||||||||| || ||||| | ||||||| | ||  ||||||||||||| || ||||| |||||||| |||||||| ||       ||    | |||| || | |   |   |   | || |   |       ||  | |  |||  ||| |    |||| ||  ||| ||      
AGCTTTGAATGAAATTTATGTTGAGGAGGAGGACTATGATAGACTTCATGAATCAATAGATCTGCATGACAACTTCGATCAGATAGGTCTTGCACAGAAGgtgaatcttccgtatctttcaaattgctaaaattgaaatctgaatcttactgagaaacttaggggtcatttggtttgaagaaatgtttttttttttttct---

upper sequence: GRMZM2G057576_T01 (Zea mays), 5'ss of exon 25
lower sequence: GLYMA02G39360.1 (Glycine max), 5'ss of exon 26
AGCCTTGAATGAGCTTTATGTCGAAGAGGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaa------taaaaataaaatagccaga-cagtcgtgcaattcctgtcgctaccgct---tttaatttaatagcatgtgttaatttattgagcag--
||| ||||||||  ||||||| || ||||||||||| || ||||| | ||||||| | ||  ||||||||||||| || ||||| |||||||| |||||||| ||       ||    | |||| || | |   |   |   | || |  ||  ||   |   | |  ||   | |||| |     ||   |   ||   
AGCTTTGAATGAAATTTATGTTGAGGAGGAGGACTATGATAGACTTCATGAATCAATAGATCTGCATGACAACTTCGATCAGATAGGTCTTGCACAGAAGgtgaatcttccttatctttcaaattgctaaaattgaaatctgaatcttaccgagacatttgggtgtgtttggtttgcattttcattttctgttttcattt

upper sequence: GRMZM2G057576_T01 (Zea mays), 5'ss of exon 25
lower sequence: GLYMA01G38580.1 (Glycine max), 5'ss of exon 26
AGCCTTGAATGAGCTTTATGTCGAAGAGGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaat-------agccagacagtcgtgcaattcctgtcgctaccgcttttaatttaat--agcatgtgttaatt--tattgagcag--------------------
||| ||||||||  ||||||| || || || |||||||| |||||||| |||||| | ||  |||||||||||||||| ||||| |||||||| |||||||| ||       ||   |       |    |||| |   ||||   |||     |     ||      |||  |  |||| | ||||  ||||||   |                    
AGCTTTGAATGAAATTTATGTTGAGGAAGAAGACTACGACAGACTCCGAGAATCAATAGATTTGCATGACAACTTTGATCAGATAGGTCTTGCACAGAAGgtgaatctcggttatcttttgtcttattttgacaatta-gcaaaatctgagatcaggaagttatggaaaatttaaaatgtttgaattattattgattggcttcaacaatacatgagcag

upper sequence: GRMZM2G057576_T01 (Zea mays), 5'ss of exon 25
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 5'ss of exon 26
AGCCTTGAATGAGCTTTATGTCGAAGAGGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaatagccagacagtcgtgcaattcct----------gtcgctaccgcttttaatttaatagcatgtgttaatttattgagcag----
 ||  |||||||| | || || ||||| || |||||||| ||  | || || ||  ||||  | ||||||| ||||||||||||||| || || ||||||||||| |  ||||| | || ||    | |  |     || |                |  || ||  |  | |||  || |     |  || | ||      
GGCTCTGAATGAGATATACGTGGAAGAAGAAGACTACGATAGGTTGCGAGAGTCTATTGATTTACATGACAGCTTTGACCAGATTGGCCTCGCTCAGAAGgtaaagttcaaatatactacccctttaatattttctctctttaaaaatggaaaaagaatggccttagagatgatataatcttcctgtgaatggtgcgaacag

upper sequence: GRMZM2G057576_T01 (Zea mays), 5'ss of exon 25
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 5'ss of exon 26
AGCCTTGAATGAGCTTTATGTCGAAGAGGAGGACTACGAGAGACTCCGTGAATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaaaataaaatagccagacagtcgtg-caattcctgtcgctaccgcttttaatttaatagcatgtgttaatttat-tgagcag
||| || ||||   || |||| || ||||||||||| || ||||| || |||||| | || |||||||| |||||||||||||| || ||||| |||||||| | | | |   ||  ||    |  | |  ||  |       |    |   | | ||     |||  || |  | ||   | ||  |||
AGCATTAAATGGTATTCATGTAGAGGAGGAGGACTATGATAGACTTCGGGAATCAATAGATATGCATGATAACTTTGACCAGATAGGCCTTGCACAGAAGgtgagagagattgaatttattttgttaatgttggtaggcttcataagcagaacatgtac----ataagatctagtgatgcgtgtggacag

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|160481599|gb|EY254431.1|EY254431
EST:     TGGTCTTGCCCAGAAG                         CTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTAC
genomic: TGGTCTTGCCCAGAAGgtaaaataaa ... tattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTAC
EST: gi|67024143|gb|CO452892.1|CO452892
EST:     ATCAGTTGACATGCATGACAACTTTTGAC-AGATTGGTCTTGCCCA-AAG                         CTTGAAAA-CATGAATTGCTGGAGATGAGGAG-ATCG
genomic: ATCAGTTGACATGCATGACAACTTT-GACCAGATTGGTCTTGCCCAGAAGgtaaaataaa ... tattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCG
EST: gi|67014840|gb|CO443589.1|CO443589
EST:     AATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAG                         CTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTAC
genomic: AATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaa ... tattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTAC