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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgtttactgttatatataacgatcatttgtgattgagagatttgcacttcctttggttcttatgttgtcttttgatgtgacagTCGTGGGAAGAATCCTCAGTGCTTGGTTTTGGCACCGACGAGGGAGCTTGCTCGTCAGGTTGAGAAAGAGTTCAGGGAATCTGCTCCAAGTTTGGATACT

Basic information

species Arabidopsis thaliana
transcript AT3G22310.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G22310.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G080512_T01 (Zea mays), 3'ss of exon 2
gtttgtgtttactgttatatataacgatcatttg---tgattgagagatttgcacttcctttggttcttatgttgtcttttgatgtg-acagTCGTGGGAAGAATCCTCAGTGCTTGGTTTTGGCACCGACGAGGGAGCTTGCTCGTCAGGTTGAGAAAGAGTTCAGGGAATCTGCTCCAAGTTTGGATACT---
||| || | | || | | || |     || |||    |   |   ||      |     | | ||  | ||    |  |  ||||    |||   ||| | |||||||     | |  | |||||||| || || || |||||||| ||||||||||| ||||| || |||||||||||    ||||| ||    
gttcgtttct-ctttcacatgtggaattcttttaatttatctaccagggagatagaatatattgtaataattgcatagtacgatgcatgcagAAATGGCAGGAATCCTTTAGCCATAATCTTGGCACCAACAAGAGAACTTGCTCGGCAGGTTGAGAAGGAGTTTAGAGAATCTGCTCC---CTTGGACACCCTC

upper sequence: AT3G22310.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA14G03760.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------------------------------------------------------gtttgtgtttactgttatatataacgatcatttgtgattgagagatttgcacttcctttggttcttatgttgtcttttgatgtgacagTCGTGGGAAGAATCCTCAGTGCTTGGTTTTGGCACCGACGAGGGAGCTTGCTCGTCAGGTTGAGAAAGAGTTCAGGGAATCTGCTCCAAGTTTGGATACT
                                                                                                  |    |   || || | |  || |  |||||     ||   ||  | |    |  || ||    || | ||||  || |||||| ||| || |||| | |||||  |   ||||||||||| ||||| || ||||||||||| |||||||| |  |||||| | || || || || | ||||||||| 
gttagttctattcttttttttaatgatatcgtgatgcttatgtttcgctatcacttgaatttgtaacttgtttctctgcgtgagttaaaggtggactaggcaattgctattggtgtggatga-aatcatggaaaatattgatttgttttttaactgtgcaagtttttttgtggtt-gatgtggcagGCGGGGGAGGGATCCTTTGGCTTTGGTTTTGGCTCCGACCAGAGAGCTTGCTCGACAGGTTGAAACGGAGTTCTGTGAGTCGGCACCTAATTTGGATACA
















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|124805160|gb|EH892617.1|EH892617
EST:     TTTGGGATTCCTATTATTGACAAAATCATCAAATTCAACGCTAAACATGG                         TCGTGGGAAGAATCCTCAGTGCT
genomic: TTTGGGATTCCTATTATTGACAAAATCATCAAATTCAACGCTAAACATGGgtttgtgttt ... gatgtgacagTCGTGGGAAGAATCCTCAGTGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgattgagagatttgcacttcctttggttcttatgttgtcttttgatgtgacagTCGTGGGAAGAATCCTCAGTGCTTGGTTTTGGCACCGACGAGGGAGCTTGCTCGTCAGGTTGAGAAAGAGTTCAGGGAATCTGCTCCAAGTTTGGATACT
                                         ttttgat  putative branch site (score: 4)
                                       tcttttg  CT-rich tract
                            ttcttat  TA-rich tract