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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgctacactatataagttctataatctttcttgcttaaatctcgtgtgcccatagtgctaatgtatgtgcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAG

Basic information

species Zea mays
transcript GRMZM2G069631_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 2
gtaagtgctacac--tatataagttctataatctttcttgcttaaatctcgtgtgcccatagt-gctaatgtatgtgcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAG
|||||| | ||||  ||| |||||| | ||   ||||||| ||||||||| ||| | |||||  |  ||| ||| ||||||  ||  ||||  | ||||||||||| ||||| || |   || | ||||||||||| |||||||||||||| ||||||||||||||||||||||||
gtaagtaccacacactatctaagttatgtagg-tttcttgtttaaatctcttgttctcatagaagtcaatttatatgcagAGCGCCAGTCGGAGTGAACTTGAGAGACAAGATTACCCGATTGCCAGGCATCCTGAATTCCGTTACAAGACTGAATTTCAGAGTCATGAACCTGAG

upper sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 2
---------------------gtaagtgctacactat--ataagttctataatc---tttcttgct------taaatctcgtg-tgcccatagt-gctaatgtatgt-gcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAG
                     | ||||| |    | |  | ||     | || |   || |||| |      | ||| | ||       ||  | ||| |   |||  |||   ||  |   |  | ||  | ||||||   || |||  | ||  |||||||||||||||||||||||| || || ||||||||||| ||||| |||
gtaagactgatttttgcttatgcaagtgtttttgtgtcaaaaaaacaaacaaacagattccttgttatgcacttaattttgtaacatgtatgtttgctgaaacatgcagCATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG

upper sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 2
-------------------------------------gtaagtgctacactatataagttctataatctttcttgcttaaatctcgtgtgcccatagtg-ctaatgtatgt-gcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAG
                                       ||     | || | ||| ||||  |    ||     |||||   |         ||  |  || |   |||  |||   ||  |   || | ||  | ||||||   || |||  | ||  |||||||||||||||||||||||| || || |||||||||||||| || |||
gtaagactattttttgcttatgcaagtgtttttgtgtaaaaaaaaaaaaccaaataggttccttg---ttatgcacttaatattgtaacatgtatgttttctgaaacatgcagCATGGTGGATCAAGAAGGGATTTGGAGAGGATGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCATGAGCCAGAG

upper sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G20830.1 (Glycine max), 3'ss of exon 2
------------------------------------gtaagtgctacactatataagttctataatctttcttgcttaaatctcgtgtgcccatagtgctaatgtatg--------tgcagAAT-GCTTGTCGAGGAGA-ACTTG-AGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAG
                                       |    |||   |  |||| | |  ||  || | |  ||| | |     |  |  || |    ||||||         ||||| || ||   || || ||  ||||| |||||   || |||  | ||  ||| ||||||||||||||||| || || || |||||||||||||| ||||||
gtaattctgattttttcttcagcaatttcttttataactaaaattactaaacttaaggtttgaaagattccat-tttacacccttaatttctctaatatctatgtatactgtaacttgcagCATTGCGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG

upper sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 2
---------------------------------gtaagtgctac-acta-tataagttctata------atctttcttgcttaaatctcgtgtgcccata-gtgctaatgtatgt-gcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAG
                                  ||| |   |  ||||   || ||| || |      |  || |   ||||| | ||   |  | ||   | ||      ||  |||  | |  |   || | ||  | ||||||   || |||  | ||  ||| ||||||||||||||||| || || || |||||||||||||| ||||||
gtaagtctaattttttcttcagcaatttcttttataactaaaattactaacttaggttttaaagattctactttacacccttaattttctaatatctatgtatactgtaacttgcagCATCACGGATCAAGAAGGGACTTGGAGAGGATGGACTATTCTATTAGTAGACATCCTGAGTTCCGTTATAAAACAGAGTTTCAGAGTCATGAGCCTGAG

upper sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 2
gtaagtgc---tacactatataagttctat--------aatctttcttgcttaaatctcgtgtgcccatagtgctaatgtatgtgcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAG
|| ||| |   |    | |  ||| | | |        ||| ||   ||||  || | |       || | || || | |  |    ||  |      |    || ||||||  |   || || |  |||   |||||||||||||| || || || || |||||||||||||||||||| |||
gtgagttcctttttcttctgcaagatttgtttcgaaaaaatgttatgtgctgtaa-cgcactcttgcaaaatgttactttcagCATGGAGGGTCCA--GGAAGGATCTTGAGCAGACGGATTACCCAGTT---AGGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAG

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|89250814|gb|DY622600.1|DY622600
EST:     GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGAT                         AATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
genomic: GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGATgtaagtgcta ... gtatgtgcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
EST: gi|91873992|gb|EB403949.1|EB403949
EST:     GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGAT                         AATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
genomic: GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGATgtaagtgcta ... gtatgtgcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
EST: gi|67012325|gb|CO441074.1|CO441074
EST:     GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGAT                         AATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
genomic: GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGATgtaagtgcta ... gtatgtgcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
EST: gi|60340196|gb|DN207169.1|DN207169
EST:     GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGAT                         AATGCTTGTCGAAGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
genomic: GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGATgtaagtgcta ... gtatgtgcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
EST: gi|148939774|gb|EC884472.2|EC884472
EST:     GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGAT                         AATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
genomic: GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGATgtaagtgcta ... gtatgtgcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
EST: gi|148991720|gb|EE033282.2|EE033282
EST:     GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGAT                         AATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
genomic: GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGATgtaagtgcta ... gtatgtgcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
EST: gi|94472892|gb|EB701850.1|EB701850
EST:     GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGAT                         AATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT
genomic: GAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGATgtaagtgcta ... gtatgtgcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctataatctttcttgcttaaatctcgtgtgcccatagtgctaatgtatgtgcagAATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAG
                                      tgctaat  putative branch site (score: 2)
                 ttaaatct  TA-rich tract