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

gtaaggcaaaacctctcttctagtcagagatttaaagacagagcaaacaccttttgtttggtttgtacacatagttaattgctctgcttatgtttgattctatagGTCTTCAATGGAAGAGACACTACAAGGATCTGAAGAGGATAGCTAGTTCATTCCGCATTGTTTAGACTTTAGAACTTTTTTGGATATATCAGATCTTCAA

Basic information

species Arabidopsis thaliana
transcript AT1G77090.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G77090.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G42010.1 (Glycine max), 3'ss of exon 4
-------------------gtaaggcaaaacctctcttcta----gtcagagatttaaagacagagcaaacaccttttgtttggtttgtacacatagttaattgctctgcttatgtttgattctatagGTCTTCAATGGAAGAGACACTACAAGGATCTGAAGAGGATAGCTAGTTCATTCCGCATTGTTTAGACTTTAGAACTTTTTTGGATATATCAGATCTTCAA--
                      |   |    | || ||  |     |||    |  | ||  |||    | ||        |  |  | ||  | ||  |||   |||  |  ||| | | | |  ||||||||| ||||||||||||||||| ||| |||||| |||||||   || |||||  |||| ||    | | | ||| | || |   |       || ||  
gtatagctatttatcctcttctaaatagtttcactgtttcacaacatcaagtctgaacagctagaaagtatacaaagaagcta-taagaactaacagaaaataa-tctaatgttgtcttaat-tgcagGTCTTCAGTGGAAGAGACACTACAATGATTTGAAGAAGATAGCTGAATCTTTCCGGGTTGTATAA--CTAAAATCTTCTGTGAACCCAGAGCTAATTGAAAT

upper sequence: AT1G77090.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G12760.1 (Glycine max), 3'ss of exon 4
------------------------gtaaggcaaaacctctcttctagtcagagatttaaagacagagcaaacaccttttgtttggtttgtacacatagttaattgctctgcttatgtttgattctatagGTCTTCAATGGAAGAGACACTACAAGGATCTGAAGAGGATAGCTAGTTCATTCCGCATTGTTTAGACTTTAGAACTTTTTTGGATATATCAGATCTTCAA---
                         ||     |    | ||   |  |||    |  | ||  |||    | ||        |  |  | ||  | ||  |||        || |  || |||    ||||||||| ||||||||||||||| | ||| |||||| |||||||   || || ||  |||| ||     |||||  || |  ||      ||||  |  |   
gtatagctatttatcctcttctaaatagtttcacttttttcacatcatcaagactgaacagctagaaagtatacaaagaagcta-taagaactaacagaaaataatctaattttttcttaatt--gcagGTCTTCAGTGGAAGAGACACTACGATGATTTGAAGAAGATAGCTGAATCTTTTCGGGTTGTATAA---CTAGAATCTTCTGCGAACCCAGAGATAATTGAAAT

upper sequence: AT1G77090.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv18s0001g15360.t01 (Vitis vinifera), 3'ss of exon 4
--gtaaggcaaaacctctcttcta-gtcagagatttaaagaca-gagcaaaca-ccttttgtttggtttgta---cacatagttaattgct-ctgcttatg-----tttgattctatagGTCTTCAATGGAAGAGACACTACAAGGATCTGAAGAGGATAGCTAGTTCATTCCGCATTGTTTAGACTTTAGAACTTTTTTGGATATATCAGATCTTCAA--
   ||   |       ||||   | |    | ||  ||| ||| ||      | || |   |   |||| |    | || |   |  |    ||  ||||       ||  ||||  ||||||||||||||||||||| ||||||||| | || | |||||||   || |||||  |||| |||  |  |||  ||| |  ||  |    || | | ||  
gtatagaacttctttgctctctcatgcttcatatcaaaaaacaagaattgttagccataaatgaagtttttgtctcgcaaaacgagctataactaattataggttacttatttctgcagGTCTTCAATGGAAGAGACATTACAAGGATTTAAAAAAGATAGCTGACTCTTTCCGTGTTGTCTAG--TCGAGATATTTCTATGAATTGAGGGAGCATAAATA

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|125320762|gb|EL334847.1|EL334847
EST:     TGCAACAGCTGCCGGAAACCGCCTTTACTTGTTCAGTGTCACCGGAAACG                         GTCT-CAATGGAAGAGACAC
genomic: TGCAACAGCTGCCGGAAACCGCCTTTACTTGTTCAGTGTCACCGGAAACGgtaaggcaaa ... gattctatagGTCTTCAATGGAAGAGACAC
EST: gi|86075038|gb|DR370795.1|DR370795
EST:     TGCAACAGCTGCCGGAAACCGCCTTTACTTGTTCAGTGTCACCGGAAACG                         GTCTTCAATGGAAGAGACACTACAAGGATCTGAAGAGGATAGCTAGTTCAT
genomic: TGCAACAGCTGCCGGAAACCGCCTTTACTTGTTCAGTGTCACCGGAAACGgtaaggcaaa ... gattctatagGTCTTCAATGGAAGAGACACTACAAGGATCTGAAGAGGATAGCTAGTTCAT
EST: gi|19741987|gb|AU227340.1|AU227340
EST:     TGCAACAGCTGCCGGAAACCGCCTTTACTTATTCAGTGTCACCGGAAACG                         GTCTTCAATGGAAGAGACAGTACAAGGATCTGAAGAGGATAGCTAGTTCAT
genomic: TGCAACAGCTGCCGGAAACCGCCTTTACTTGTTCAGTGTCACCGGAAACGgtaaggcaaa ... gattctatagGTCTTCAATGGAAGAGACACTACAAGGATCTGAAGAGGATAGCTAGTTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttgtttggtttgtacacatagttaattgctctgcttatgtttgattctatagGTCTTCAATGGAAGAGACACTACAAGGATCTGAAGAGGATAGCTAGTTCATTCCGCATTGTTTAGACTTTAGAACTTTTTTGGATATATCAGATCTTCAA
                    atagttaatt  TA-rich tract