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

gcaataatctttccctgcccactttcttgccccggccccggtttaatgcattcttatttattttagcttcttgacttgcatttcttgcatattacctgtgcatgtcgttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTTGGGACAAAACTTG

Basic information

species Zea mays
transcript GRMZM2G375002_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G375002_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g58730.2 (Oryza sativa), 3'ss of exon 3
gcaataatctttccctgcccactttcttgccccggccccggtttaatgcattcttatttattttagcttcttgacttgcatttcttgcatattacctgtgcatgtcgttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTTGGGACAAAACTTG
|||||||  | |  | ||||||||||||  | |   | |  |  | | |        |||  ||||    |  || ||  | |||||||  | ||   |  || |   | ||  |||||| | |||||||||||||| ||||||||||| ||||| ||||| || ||||| ||||| ||||
gcaataaaatcttgccgcccactttctttgctctctctccatgaagtac-------cttagcttag----tcaacctgt-tatcttgcac-tgacacatatatatttctgttgtcagTGGATACCTGAATTAAGGCATTATGCTCCTGGTGTGCCAATAATTCTCGTTGGAACAAAGCTTG

upper sequence: GRMZM2G375002_T03 (Zea mays), 3'ss of exon 3
lower sequence: AT4G35020.3 (Arabidopsis thaliana), 3'ss of exon 5
gcaataatctttccctgcccactttcttgccccggccccggtttaatgcattcttatttattttagcttct-tgacttgcatttcttgcatattacctgtgcatgtcgttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTTGGGACAAAACTTG
                  |     ||||  || |   |   |||  ||   | ||||| | ||||  |||  ||| |   ||    | ||| |    | |   | | | || ||  |||||||||||||| | || || ||||||||||| || ||||| ||||| ||||| ||||| ||||
-----------gtttgatctgtggtcttctcctgaaacttctttcctg---ttttattcagtttacattcagtgattctgatagaatacatttggtatcttgcttttgattctt--agTGGGTTCCTGAACTGAGACATTATGCTCCTGGTGTTCCCATCATCCTCGTTGGAACAAAGCTTG
















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|211163171|gb|FK955398.1|FK955398
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
EST: gi|211164770|gb|FK955409.1|FK955409
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
EST: gi|14242930|gb|BG840265.2|BG840265
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
EST: gi|211164778|gb|FK955417.1|FK955417
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGNT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
EST: gi|211236576|gb|FK955423.1|FK955423
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGGT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
EST: gi|211163178|gb|FK955405.1|FK955405
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
EST: gi|211164773|gb|FK955412.1|FK955412
EST:     TCGCCNTTNCTCTTATCAGCANAGCAAGCTATGANAATGTCTCTAAGAAG                         TGGGTTCCTTGAATTAAGGCACTATGCTCCTG-CGTGCCCATAATCCTTGT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCT-GAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGT
EST: gi|211163176|gb|FK955403.1|FK955403
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCT
EST: gi|211164772|gb|FK955411.1|FK955411
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
EST: gi|32827834|gb|CD967512.1|CD967512
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTA
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTA
EST: gi|211163175|gb|FK955402.1|FK955402
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
EST: gi|32936373|gb|CF041192.1|CF041192
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTA
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTA
EST: gi|211385329|gb|FL304291.1|FL304291
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
EST: gi|211164771|gb|FK955410.1|FK955410
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
EST: gi|31558461|gb|CD527673.1|CD527673
EST:     TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAG                         TGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT
genomic: TCGCCTTTTCTCTTATCAGCAAAGCAAGCTATGAGAATGTCTCTAAGAAGgcaataatct ... ttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagcttcttgacttgcatttcttgcatattacctgtgcatgtcgttttttccagTGGGTTCCTGAATTAAGGCACTATGCTCCTGGCGTGCCCATAATCCTTGTTGGGACAAAACTTG
      tcttgac  putative branch site (score: 3)
                                          tcgttttttcc  putative PPT
                          atatta  TA-rich tract