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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAATTGGCATACTTGGAATGTATCCATCTGTTTGTTGAGATATTGGACCATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttatgcttcactaggctaatctagcaatctgcaataattcaatactttttatcttttcacatcttgtatttaaactttaaagagcagtttccaa...

Basic information

species Zea mays
transcript GRMZM2G052713_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G052713_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os12g10560.1 (Oryza sativa), 5'ss of exon 4
CGAATTGGCATACTTGGAATGTATCCATCTGTTTGTTGAGATATTGGACCATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaact-ttatgcttcactaggctaatctagcaatc-tgcaataatt-caatactttttatcttttcacatcttgtatttaaactttaaagagcagtttccaa
 || ||||||||||||||||| |||||  ||||||| |||||||| || |||||||||||||||||||||||||| || ||||||||||||||||||||||||||   |||   |||  |||||| ||  | |    |   | ||||   |||||  | |||   |  || ||  | | | |  |||||  || |||      
TGAGTTGGCATACTTGGAATGCATCCACTTGTTTGTCGAGATATTAGATCATTTCTTCAGCAATGTGTGTGAACTCGACTTAGTATTTAATTTCCACAAGgtaacagctatttctcaacaggctattcctgtatcagtatgacaattatgatactcatgatccaattgca-ctcctttctcatgtttaagcagaagtgaaa--

upper sequence: GRMZM2G052713_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA17G37730.1 (Glycine max), 5'ss of exon 4
CGAATTGGCATACTTGGAATGTATCCATCTGTTTGTTGAGATATTGGACCATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttatgcttcactaggctaatctagcaatctgcaataattcaatactttttatcttttcaca-tcttgtatttaaactttaaagagcagtttccaa
 || ||||| || || || || |||||| ||||||| || |||||||| || |||||||||||||| ||||| || ||||| || ||||| |||||||||||   || || ||    |    |       |  | |    |  ||   | | ||||| | |   | | || ||   ||     |      |  | |    |
-GAGTTGGCGTATTTAGAGTGCATCCATTTGTTTGTGGAAATATTGGATCACTTCTTCAGCAATGTCTGTGAGCTCGATTTGGTTTTTAACTTCCACAAGGtttgttaattctctcttcttgttcctataccgtgtttgtttgtttcttgcattttaccatcaaataatcatgggattgttgatgttgatgttgatgttga

upper sequence: GRMZM2G052713_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA14G40430.2 (Glycine max), 5'ss of exon 4
CGAATTGGCATACTTGGAATGTATCCATCTGTTTGTTGAGATATTGGACCATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat-gcttcactaggctaatctagcaatctgcaataattcaatactttttatcttttcaca-tcttgtattta--aactttaaagagcagtttccaa
 || ||||| || || || || |||||| ||||||| || |||||||| || |||||||||||||| ||||| |||||||| || ||||| |||||||||||   || || | | |  |   |  |||  |   | ||   |   |   |   ||||| | |   | | || |||  ||    |  || |     |  | ||| 
TGAGTTGGCGTATTTAGAGTGCATCCATTTGTTTGTGGAAATATTGGATCACTTCTTCAGCAATGTCTGTGAGCTTGATTTGGTTTTTAACTTCCACAAGgtttgttaattgttaccttgttcctatcctgtg-tttgt--ttgcttgttgtattttagcatcaaataatcatgtgattgttgatgttgatatctatgtgcca-

upper sequence: GRMZM2G052713_T01 (Zea mays), 5'ss of exon 4
lower sequence: AT1G47830.1 (Arabidopsis thaliana), 5'ss of exon 4
CGAATTGGCATACTTGGAATGTATCCATCTGTTTGTTGAGATATTGGACCATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttatgcttcactaggctaatctagcaatctgcaataa--ttcaatactttttatctt---ttcacatcttgtattta-aactttaaagagcagtttccaa
 || ||||| ||||||||  |||||||| ||||||| ||||||||||||||||||||||||||||| ||||| || ||||| || ||||||||||||||||||  |     ||| |||    || |||     | || ||  |  |||   |  |  |   ||   |||| | |||  | ||   |   |  | | ||  |     
TGAGTTGGCTTACTTGGAGAGTATCCATTTGTTTGTGGAGATATTGGACCATTTCTTCAGCAATGTTTGTGAGCTAGATTTGGTGTTTAATTTCCACAAGgtacttaacctctttact----tactcttatcctttgtaaatagcttctggaactgcttcgttggattcataactttaagttgtgatgctgtacaacaactggt--

upper sequence: GRMZM2G052713_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv18s0001g14240.t01 (Vitis vinifera), 5'ss of exon 5
CGAATTGGCATACTTGGAATGTATCCATCTGTTTGTTGAGATATTGGACCATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttatgcttcactaggctaatctagcaatctgcaataattcaatactttttatcttttcacatcttgtatttaaact-ttaaagagcagtttccaa---------
 || |||||||| || || || |||||||||||||| || ||| |||| |||||||||||||||||||| || || ||||| ||||||||||||||||||||   ||  | ||| | ||| |   ||| |    ||| ||||||     || ||  |  || |||  |  |||     || | || ||  | || ||   |         
TGAGTTGGCATATTTAGAGTGCATCCATCTGTTTGTGGAAATACTGGATCATTTCTTCAGCAATGTGTGCGAGCTAGATTTGGTATTTAATTTCCACAAGgt---ttgttacttgattag-cgtttcttgtccactggaataat-----accttccaa-ttctcatgtgctgtcaaggaattctttaattgtagcttatgactgattctt

upper sequence: GRMZM2G052713_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv04s0023g03340.t01 (Vitis vinifera), 5'ss of exon 4
CGAATTGGCATACTTGGAATGTATCCATCTGTTTGTTGAGATATTGGACCATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttatgcttcactaggctaatctagcaatctgcaataattcaatactttttatcttttcacatcttgtatttaaactttaaagagcagtttccaa
 || || ||||| ||||| || |||||||| ||||||||||||||||||||||||||||||||||||||||| || ||||| |||||||| || |||||||| | |  |    |   ||      | |     |    |||  | | |      | ||   |  | ||    || |||     ||      | |||  | 
TGAGTTAGCATATTTGGAGTGCATCCATCTCTTTGTTGAGATATTGGACCATTTCTTCAGCAATGTGTGTGAGCTAGATTTGGTATTTAACTTTCACAAGgttagtgcaattatggttacttcttttttctggttctgaattgtcctaattgaatgataaatggatattgcctacttatttcatatctgttattttgaac

upper sequence: GRMZM2G052713_T01 (Zea mays), 5'ss of exon 4
lower sequence: PP1S250_15V6.1 (Physcomitrella patens), 5'ss of exon 4
CGAATTGGCATACTTGGAATGTATCCATCTGTTTGTTGAGATATTGGACCATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttatg---cttcactaggctaatctagcaatctgcaataatt--------caatactttttatcttttcacatcttgtatt------taaactttaaagagcagtttccaa--------------------------------------------------------------
|||  |||| ||  | ||| | || ||| ||||||| |||||||||||||||||||||||||| || ||||| || ||||| || || || |||||||||||    ||  |   |||| || | |   |  | ||  |  ||  ||          || ||  ||  |||| || |||||| |   |      |||  || |  | | | | |   |                                                              
CGAGCTGGCCTATCTTGAAAGCATTCATTTGTTTGTGGAGATATTGGACCATTTCTTCAGCAACGTCTGTGAGCTGGATTTGGTCTTCAACTTCCACAAGgtttaattgcgtttcttctcttgacatttggaacatacgtcatcaagctttttgcacagtaacttacatctgttgacatctagatctccgtattaagattcatggtggattgtaggatgcatgtcgaatgtttgtattgtggtggtgtgaaaataacgttttcatgctatggttgacag

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|60352004|gb|DN218977.1|DN218977
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|211344140|gb|FL188310.1|FL188310
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|32938017|gb|CF042836.1|CF042836
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|60394275|gb|DN227145.1|DN227145
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|67011386|gb|CO440135.1|CO440135
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|32936019|gb|CF040831.1|CF040831
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCCCAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|211344136|gb|FL188306.1|FL188306
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|211344143|gb|FL188313.1|FL188313
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|60351820|gb|DN218793.1|DN218793
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|60356394|gb|DN223367.1|DN223367
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|211344141|gb|FL188311.1|FL188311
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|211341753|gb|FL188303.1|FL188303
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCATTCTTGCTGGAGAGCTTCAAGAAACA
EST: gi|211344137|gb|FL188307.1|FL188307
EST:     ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAG                         GTTTACTTGATATTGGATGAGTTCA
genomic: ATTTCTTCAGCAATGTGTGTGAACTTGATTTAGTATTTAATTTCCACAAGgtaactttat ... tctgctgtagGTTTACTTGATATTGGATGAGTTCA