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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcactctactcctcacactctagtaacgttattcagttctcgatttgttttacttactagaccttgtgtgaaaaattgcagGCATGATCTTGAAGTTAACGGAGGAAAAGGTCTAATCGTTGACCCAAGAACAAAATACGTTTATCAACGGCCATGAACCAAAATCAAAGACCGTTACTTT

Basic information

species Arabidopsis thaliana
transcript AT1G69340.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G69340.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: LOC_Os10g30750.1 (Oryza sativa), 3'ss of exon 13
gtaagttcactctactc---ctcacactctagtaacgttattcagttctcgatttgttttacttactagaccttgtgtgaaaaattgcagGCATGATCTTGAAGTTAACGGAGGAAAAGGTCTAATCGTTGACCCAAGAACAAAATACGTTTATCAACGGCCATGAACCAAAATCAAAGACCGTTACTTT
|||||| | || ||| |     || | | | | |   |    |||||         |  |   || ||     |||      | || |||||||||| | || || ||||| || | ||| ||||| |||||||||||||||||| || |||||||  | || |    |  |   | | |    | |  |
gtaagtaccctttacacaatgccagattttggcacattgccacagttgctagaaaatcatg--taatat-ttatgtacttgtacttacagGCATGATTTGGAGGTGAACGGTGGGAGAGGCCTAATTGTTGACCCAAGAACAAAACACATTTATCAGAGACCGTCTGGCTGATGTAGATATTTCTGCGGT

upper sequence: AT1G69340.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GRMZM2G100707_T01 (Zea mays), 3'ss of exon 13
gtaagttcactctactcctcacactctagtaacgttattcagttctcgatttgttttacttactagaccttgtgtgaaaaat--tgcagGCATGATCTTGAAGTTAACGGAGGAAAAGGTCTAATCGTTGACCCAAGAACAAAATACGTTTATCAACGGCCATGAACCAAA---ATCAAAGACCGTTACTTT
|||||  || |||| | ||          || | ||  | ||   ||   | |||      |||  | |||   | |  |||  ||||||||||| |||||||| || || ||||| ||  ||||||||||||||||||||||  |  | || ||  | ||||       |    ||| | |||   |    
gtaag--caatctagtacttgt-------tagcttttcttagaggtccgctagttac-tagactccatcttaaataatcaatcctgcagGCATGACCTTGAAGTGAATGGTGGAAAGGGCATAATCGTTGACCCAAGAACAAAGCATATCTACCAGAGACCATCTGGTTGATCTGTCATAAACCTGCAA---

upper sequence: AT1G69340.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA02G12670.1 (Glycine max), 3'ss of exon 14
----------------------------------------------------------------------------------------gtaagttcactctactcctcacactctagtaac--gttattcagttctcgatttgttttacttactagaccttgtg--tgaaaaattgcagGCATGATCTTGAAGTTAACGGAGGAAAAGGTCTAATCGTTGACCCAAGAACAAAATACGTTTATCAACGGCCATGAACCAAAATCAAAGACCGTTACTTT--
                                                                                        | || | || |  | |    |  |   | | ||  || | |    | | |||| ||      || |  |  ||||   |  |   |   ||||||||  | ||||| || |||||||||||||| || || || |||||||||||||| |||||||| || |||||| |  |   ||    | |||   |   
gttgagtctatgttttcatgttataatcatttgttccttttcataatatgctattacatgggtaacacactctggtttaaatttattggaaattacaattaaataaaaaagcgagacttacaagtaaatgtactttagatt-gtaggttctaattcattttgtacttctattctcatagGCATGACTTAGAAGTGAATGGAGGAAAAGGTCTCATTGTGGATCCAAGAACAAAATATGTTTATCACCGACCATGAGC--ATGCCACCTGCAGTTCTATCAT

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|86088362|gb|DR384121.1|DR384121
EST:     TTCAAATACGTTCCTCGTGAGCAGCTGACAATCCCAGACTTTGTTTTCCA                         GCATGATCTTGAAGTTAACGGAGGAAAAGGTCTAATCGTTGACCCAAGAAC
genomic: TTCAAATACGTTCCTCGTGAGCAGCTGACAATCCCAGACTTTGTTTTCCAgtaagttcac ... aaaattgcagGCATGATCTTGAAGTTAACGGAGGAAAAGGTCTAATCGTTGACCCAAGAAC
EST: gi|116483385|gb|EG525977.1|EG525977
EST:     TTCAAATACGTTCCTCGTGAGCAGCTGACAATCCCAGACTTTGTTTTCCA                         GCATGATCTTGAAGTTAACGGAGGAAAAGGTTTAATCGTTGCCCCAAGAAC
genomic: TTCAAATACGTTCCTCGTGAGCAGCTGACAATCCCAGACTTTGTTTTCCAgtaagttcac ... aaaattgcagGCATGATCTTGAAGTTAACGGAGGAAAAGGTCTAATCGTTGACCCAAGAAC
EST: gi|125276643|gb|EL290728.1|EL290728
EST:     CCTCGTGAGCAGCTGACAATCCCAGACTTTGTTTTCCA                         GCATGATCTTGAAGTTAACGGAGGAAAAGGTCTAATCGTTGACCCAAGAAC
genomic: CCTCGTGAGCAGCTGACAATCCCAGACTTTGTTTTCCAgtaagttcac ... aaaattgcagGCATGATCTTGAAGTTAACGGAGGAAAAGGTCTAATCGTTGACCCAAGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgttattcagttctcgatttgttttacttactagaccttgtgtgaaaaattgcagGCATGATCTTGAAGTTAACGGAGGAAAAGGTCTAATCGTTGACCCAAGAACAAAATACGTTTATCAACGGCCATGAACCAAAATCAAAGACCGTTACTTT
                        tacttac  putative branch site (score: 1)
                atttgttttactta  TA-rich tract