Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaaactcaggattggatctttttaaagttctactctttacttttggattcattttgttaaattttgtgtttggttcattgatttacagAGATTGGTGGTAAAGACGAAGAGTGTAGAGTTTATGCCATTCTTTTTGTCACTCTTTGTCTTCCTCTGTGGTACTTCGTGGTTCGTCTATGGTCTAATCG

Basic information

species Arabidopsis thaliana
transcript AT1G21460.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G21460.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA14G27610.1 (Glycine max), 3'ss of exon 4
--gtaagcaaactcaggattggatctttttaaagttctactctttacttttg-gattcattttgttaaattttgtgt----ttggttcattgatttacagAGATTGGTGGTAAAGACGAAGAGTGTAGAGTTTATGCCATTCTTTTTGTCACTCTTTGTCTTCCTCTGTGGTACTTCGTGGTTCGTCTATGGTCTAATCG
  | ||| |   |     |    ||     |   || ||    || |   || |||   |||   || ||| |   |    || |    |   | | |||||  | ||| | || || ||||| || ||||| ||||| |||||  | ||||||||||| ||||||||||||||||| |||||| |||| || ||| | |
tagaaagtatgttgcaattatattccaaacattattgtataaattccaagtgagatatttttctatagattcttcattattttagagtgtgtgtgtgcagAGGCTAGTGATCAAAACCAAGAGCGTGGAGTTCATGCCCTTCTTCCTCTCACTCTTTGTGTTCCTCTGTGGTACTTCTTGGTTCATCTACGGGCTACTAG

upper sequence: AT1G21460.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv18s0001g15330.t01 (Vitis vinifera), 3'ss of exon 4
gtaagcaaactcaggattggatctttttaaagttctactctttacttttggattcattttgttaaattttgtgtttggttcattg---atttacagAGATTGGTGGTAAAGACGAAGAGTGTAGAGTTTATGCCATTCTTTTTGTCACTCTTTGTCTTCCTCTGTGGTACTTCGTGGTTCGTCTATGGTCTAATCG
||||||  | |          | | ||||    |||  |   ||     |  |  |||   |   |||         | | |||    | || |||||| ||||| | || || |||||||||||||  ||||| ||||| || ||||| || || |||||||| |||||||| ||||| |||| ||| ||| |||
gtaagctcagtttactccctttttctttagtagtctcttgaataagacagactggattggatgggattaaactccctgattattatgtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCACTGTTCGTGTTCCTCTGCGGTACTTCCTGGTTTGTCTTTGGCCTACTCG
















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|124923016|gb|EL001250.1|EL001250
EST:     CAGCTACTGTTTTCTCCATCATCATGTACGCTTCTCCACTCTCTATCATG                         AGATTGGTGGTAAA
genomic: CAGCTACTGTTTTCTCCATCATCATGTACGCTTCTCCACTCTCCATCATGgtaagcaaac ... tgatttacagAGATTGGTGGTAAA
EST: gi|86082349|gb|DR378108.1|DR378108
EST:     CAGCTACTGTTTTCTCCATCATCATGTACGCTTCTCCACTCTCCATCATG                         AGATTGGTGGTAAAGACGAAGAGTGTAGAGTTTATGCCATTCTTTTTGTCA
genomic: CAGCTACTGTTTTCTCCATCATCATGTACGCTTCTCCACTCTCCATCATGgtaagcaaac ... tgatttacagAGATTGGTGGTAAAGACGAAGAGTGTAGAGTTTATGCCATTCTTTTTGTCA
EST: gi|86075238|gb|DR370995.1|DR370995
EST:     CAGCTACTGTTTTCTCCATCATCATGTACGCTTCTCCACTCTCCATCATG                         AGATTGGTGGTAAAGACGAAGAGTGTAGAGTTTATGCCATTCTTTTTGTCA
genomic: CAGCTACTGTTTTCTCCATCATCATGTACGCTTCTCCACTCTCCATCATGgtaagcaaac ... tgatttacagAGATTGGTGGTAAAGACGAAGAGTGTAGAGTTTATGCCATTCTTTTTGTCA
EST: gi|19876186|gb|AU237017.1|AU237017
EST:     CAGCTACTGTTTTCTCCATCATCATGTACGCTTCTCCACTCTCCATCATG                         AGATTGGTGGTAAAGACGAAGAGTGTAGAGNTTATGCCATTCTTTTTGNCA
genomic: CAGCTACTGTTTTCTCCATCATCATGTACGCTTCTCCACTCTCCATCATGgtaagcaaac ... tgatttacagAGATTGGTGGTAAAGACGAAGAGTGTAGAGTTTATGCCATTCTTTTTGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttacttttggattcattttgttaaattttgtgtttggttcattgatttacagAGATTGGTGGTAAAGACGAAGAGTGTAGAGTTTATGCCATTCTTTTTGTCACTCTTTGTCTTCCTCTGTGGTACTTCGTGGTTCGTCTATGGTCTAATCG
                                          cattgat  putative branch site (score: 4)
             attcattttgttaaat  TA-rich tract