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

gtaaatacatgttttcggtctccctactaacagctttttgccactatctttctttctcatgtatgctaaggatctacagtgcattcattttagGTTCTTGATGAAATTCATCAGCAATCTGTTGTCTTATCCTCTCAACAACCATCAGTATCATCTATAGGATCTGTTCCTGCACCTAACGACGTTGTGGATT

Basic information

species Arabidopsis thaliana
transcript AT5G45290.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G45290.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G08260.1 (Glycine max), 3'ss of exon 6
gtaaatacatgttttcggtct-ccctactaacagctttttgccactatctttctttctcatgtatgctaaggatctacagtgcattcatt--ttagGTTCTTGATGAAATTCATCAGCAATCTGTTGTCTTATCCTCTCAACAACCATCAGTATCATCTATAGGATCTGTTCCTGCACCTAACGACGTTGTGGATT---
|||| |  |   |   | |        ||     ||  |   ||||| || | ||| |  ||| ||      ||||   || |||   ||  ||||||||| ||||||||||| || ||||||||||| ||||| || |  |   |||| ||||| ||||| |||||||||||||||||||| || ||||| ||||   
gtaattttaaagtgctgtttagttactctggtttctgatgatcactaactatatttttactgtttg-----aatcttttgtacatattttaattagGTTCTAGATGAAATTCACCACCAATCTGTTGTTTTATCTTCCCGCC---CATCTGTATCTTCTATTGGATCTGTTCCTGCACCTAATGATGTTGTCGATTCCT

upper sequence: AT5G45290.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G35060.1 (Glycine max), 3'ss of exon 5
gtaaatacatgttttcggt-ctccctactaacagctttttgccactatc-tttctttctcatgtatgctaaggatctacagtgcattcattttagGTTCTTGATGAAATTCATCAGCAATCTGTTGTCTTATCCTCTCAACAACCATCAGTATCATCTATAGGATCTGTTCCTGCACCTAACGACGTTGTGGATT---
         |   |||  | | |  |  ||   | || | |   | ||| |||  |  | ||  | | | |  || |  |    |||    ||||||||| ||||||||||| ||||||||||| || ||||| ||||  |   | || || |||||||| || || |||||||||||||| ||||||||||| |   
--------gtaagttcaatgcactgtgttagttg-ttctggtggccatcgttttataattatacaagttgaatatttgta-catattttaattagGTTCTGGATGAAATTCACCAGCAATCTGTGGTTTTATCATCTCGCC---CTTCTGTGTCATCTATCGGTTCCGTTCCTGCACCTAATGACGTTGTGGAATCCT

upper sequence: AT5G45290.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA16G17110.1 (Glycine max), 3'ss of exon 3
gtaaatacatgttttcggtctccctactaacagctttttgccactatctttctttctcatgtatgctaaggatctacagtgcattcatt--ttagGTTCTTGATGAAATTCATCAGCAATCTGTTGTCTTATCCTCTCAACAACCATCAGTATCATCTATAGGATCTGTTCCTGCACCTAACGACGTTGTGGATT---
|||| || | | |   | | |   ||||      || |    |  |   ||  |     | ||   |  | |||    ||||||   ||  ||||||||| ||||||||||| | |||||||||||| ||||| || |  |   |||| ||||| ||||| ||| |||||||||||||||| || ||||| ||||   
gtaattataaggtgctg-tttaattactc-tgatttctgatgatcactattaatatatttttacaatttgaatcatttgtgcatattttaattagGTTCTGGATGAAATTCACCTGCAATCTGTTGTTTTATCTTCCCGCC---CATCTGTATCTTCTATTGGACCTGTTCCTGCACCTAATGATGTTGTCGATTCCT

upper sequence: AT5G45290.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA01G35490.1 (Glycine max), 3'ss of exon 3
gtaaatacatgttttcggtctccctactaacagcttt--ttgccactatctttctttctcatgtatgctaaggatctacagtgcattcattttagGTTCTTGATGAAATTCATCAGCAATCTGTTGTCTTATCCTCTCAACAACCATCAGTATCATCTATAGGATCTGTTCCTGCACCTAACGACGTTGTGGATT---
|||| | ||  | | |||| |      || | | | |  | | || |   |||  |  | ||  | | | |  || |  |    |||    ||||||||| ||||||||||| ||||||||| | || ||||| ||||  |   | || || |||||||| || ||||||||||||||||| || |||||||| |   
gtaagttca-atgtacggtgt------tagctgttctggtggtcatt-cattttataattatacaagttgaatatttgta-catattttaattagGTTCTGGATGAAATTCACCAGCAATCTATGGTTTTATCTTCTCGCC---CTTCTGTGTCATCTATCGGTTCTGTTCCTGCACCTAATGAAGTTGTGGAATCCT

upper sequence: AT5G45290.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv02s0087g00420.t01 (Vitis vinifera), 3'ss of exon 3
---gtaaatacatgttttcggtctccctactaacagctttttgccactatctttctt-tctcatgtatgctaag--gatctacagtgcattcattttagGTTCTTGATGAAATTCATCAGCAATCTGTTGTCTTATCCTCTCAACAACCATCAGTATCATCTATAGGATCTGTTCCTGCACCTAACGACGTTGTGGATT---
    |    | || || |     |   |  |     |||||  ||| ||| ||  || | ||||  |   ||||  ||  |    |  || |  | |||||||| ||||||||||| ||||||||||| |||||||| || | |   || || ||||| ||||| || ||||||||||| || || || ||||| || |   
gtgatgctaatatattattatattttgtgatggtcactttt--ccagtattttctttgtatcattcaatataagttgaatttttttttatac-ctatagGTTCTGGATGAAATTCACCAGCAATCTGTGGTCTTATCGTCCCGA---CCTTCTGTATCTTCTATTGGTTCTGTTCCTGCTCCAAATGAAGTTGTAGAATCTT

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|164027643|gb|ES158379.1|ES158379
EST:     CTCTCTTCGAG                         GTTCTTGATGAAATTCATCAGCAATCTGTTGTCTTATCCTCTCAACAACCA
genomic: CTCTCTTCGAGgtaaatacat ... ttcattttagGTTCTTGATGAAATTCATCAGCAATCTGTTGTCTTATCCTCTCAACAACCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgccactatctttctttctcatgtatgctaaggatctacagtgcattcattttagGTTCTTGATGAAATTCATCAGCAATCTGTTGTCTTATCCTCTCAACAACCATCAGTATCATCTATAGGATCTGTTCCTGCACCTAACGACGTTGTGGATT
                                             ttcatttt  CT-rich tract
                                            attcatttta  TA-rich tract