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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtcgtcatttcttcttgcacatgcttaataataccgccatttgcttctcttttcccttcatttcatactccattgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCAGAGTTTAGAAAAATTCAGCAATG

Basic information

species Zea mays
transcript GRMZM2G161418_T05
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G161418_T06 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA16G25450.3 (Glycine max), 3'ss of exon 8
-----gttagtcgtcatttcttcttgcacatgcttaataataccg--ccatttgcttctcttttcccttcatttcatactccattgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCAGAGTTTAGAAAAATTCAGCAATG
      ||  |  | ||   | |   |     |  |||  |   |   || | | || |  |||  ||   ||||||  ||||||  || ||||||||||| ||||| ||||||||||| |||||||| ||||| || ||  | ||||| || ||||  || |||||
gtaatatttttgcttataattccccccctccccccaatttttttggctcactggatttttatttatctgt-tttcat-ttccatt--ttttagGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCCGTGCTTACTGAGTTCAGGAAAAACCAACAATG

upper sequence: GRMZM2G161418_T06 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA03G04500.1 (Glycine max), 3'ss of exon 8
-------gttagtcgtcatttcttcttgcacatgcttaataataccgccatttgcttctcttttcccttcatttcatactccattgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCAGAGTTTAGAAAAATTCAGCAATG
        || |     |||||  |||| |  | |     | |       ||  ||    || ||  ||   |||| | |||||| |    |||||||||| ||||| ||||||||||| |||||||| |||||||| ||  | ||||| || ||||  || |||||
gtaaaaattttgcttatatttccccttgtaatttccctccatttttttggttcactgaatttatctgtt---ttca-attccattttc---agGTGAGAGATGAGACTTACACTGCCTTTGAAAACATATATCCTGTGCTTACGGAGTTCAGGAAAAACCAACAATG
















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|7137809|gb|AW499281.1|AW499281
EST:     TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAG                         GTGAGAGAGGAGACCTACACTGNNCCTTCGAAAACATCTATCCTGTACTGT
genomic: TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAGgttagtcgtc ... ttgtttgtagGTGAGAGAGGAGACCTACACTG--CCTTCGAAAACATCTATCCTGTACTGT
EST: gi|166531265|gb|EG288612.1|EG288612
EST:     TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAG                         GTGAGAGAGGAG
genomic: TTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAAAGgttagtcgtc ... ttgtttgtagGTGAGAGAGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataataccgccatttgcttctcttttcccttcatttcatactccattgtttgtagGTGAGAGAGGAGACCTACACTGCCTTCGAAAACATCTATCCTGTACTGTCAGAGTTTAGAAAAATTCAGCAATG
 gcttaat  putative branch site (score: 4)
            tttgcttctcttttcc  putative PPT
                                atttcata  TA-rich tract