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'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaactatagtttctaattatacagacaaaaaatctccatagtttttttttcctaagaaaagtcgtgctggtttacttggtttttgtctgtcaaactatgacagatttcagttcccgtgtaactataccctaacagctgatgtcataataacccttagGCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGTCATATCTCATCAG

Basic information

species Zea mays
transcript GRMZM2G021846_T01
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G021846_T02 (Zea mays), 3'ss of exon 19
lower sequence: LOC_Os05g07130.2 (Oryza sativa), 3'ss of exon 20
gtaaaaactatagtttctaa--ttatacagacaaaaaatctccatagtttttttttcctaagaaaagtcgtgctggtttacttggtttttgtctgtcaaactatgacagatttcagttcccgtgtaactataccctaacagctgatgtcataataacccttagGCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGTCATATCTCATCAG
||  || | ||   ||||||  |||| |||| ||||| | | || |||| |||   | |    || |   ||  |   || |   || |          || |  || |  ||||||   |             |||||   |||| |  ||| || ||| || |||||||| || ||||| ||||||||||||||||| |||||||| || || || || || |||
gtttaatc-atttcttctaatattattcaga-aaaaacttttcacagttctttagac-tgcacaatgcaatg--gaaataatcaattct----------accagtac-gtcttcagtcttca------------ctaacttgtgatttggtaa-aatcctcagACTGGAACCTGTTATCATTGAGCTAGAACGCCAGCGAGCACCAGTAGTCGTTATTTCCCACCAG
















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|32925226|gb|CF030038.1|CF030038
EST:     CTAAGATACCGCTACCCCCGTGGAGAATCTTACCTCGATGTGATACAGAG                         GCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT
genomic: CTAAGATACCGCTACCCCCGTGGAGAATCTTACCTCGATGTGATACAGAGgtaaaaacta ... taacccttagGCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT
EST: gi|32926593|gb|CF031405.1|CF031405
EST:     CTAAGATACCGCTACCCCTGTGGAGAATCTTACCTCGATGTGATACAGAG                         GCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT
genomic: CTAAGATACCGCTACCCCCGTGGAGAATCTTACCTCGATGTGATACAGAGgtaaaaacta ... taacccttagGCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT
EST: gi|32838571|gb|CD978249.1|CD978249
EST:     CTAAGATACCGCTACCCCCGTGGAGAATCTTACCTCGATGTGATACAGAG                         GCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT
genomic: CTAAGATACCGCTACCCCCGTGGAGAATCTTACCTCGATGTGATACAGAGgtaaaaacta ... taacccttagGCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT
EST: gi|32941577|gb|CF046396.1|CF046396
EST:     CTAAGATGCCGCTACCCCCGTGGAGAATCTTACCTCGATGTGATACAGAG                         GCTGGAGTCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT
genomic: CTAAGATACCGCTACCCCCGTGGAGAATCTTACCTCGATGTGATACAGAGgtaaaaacta ... taacccttagGCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT
EST: gi|32941092|gb|CF045911.1|CF045911
EST:     CTAAGATACCGCTACCCCCGTGGAGAATCTTACCTCGATGTGATACAGAG                         GCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT
genomic: CTAAGATACCGCTACCCCCGTGGAGAATCTTACCTCGATGTGATACAGAGgtaaaaacta ... taacccttagGCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT
EST: gi|149062837|gb|EE157555.2|EE157555
EST:     CTAAGATACCGCTACCCCCGTGGAGAATCTTACCTCGATGTGATACAGAG                         GCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT
genomic: CTAAGATACCGCTACCCCCGTGGAGAATCTTACCTCGATGTGATACAGAGgtaaaaacta ... taacccttagGCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttcagttcccgtgtaactataccctaacagctgatgtcataataacccttagGCTGGAACCCGTCATCATCGAGCTAGAACGCCAGCGTGCACCAGTGGTTGTCATATCTCATCAG
                                          taataac  putative branch site (score: 1)
                                                ccctt  CT-rich tract
                                       tcataataa  TA-rich tract