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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatctaatctctcgattattgtatagattatggatctagtttatgtatcgtgattttacgaattttggttttgatctgatctttgcagCTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG

Basic information

species Arabidopsis thaliana
transcript AT2G24765.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G24765.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os08g15040.2 (Oryza sativa), 3'ss of exon 2
-------gtatgtatctaatctctcgattattgtatagattatggatctagtttatgtatcgtgattttacgaattttggttttgatctgatctttgcagCTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG
           |   |  ||  |   ||| || |        | | | |  |    |  |  || |     |  |  | ||| |  |    |   |||||| ||||| || ||||| ||||| |||||||||||||| |||||||| || ||||||||| | |
gtgggttccccgctcccgattccctcattttttttcttccattcggtttgctccgcgggtt-tggtgacgtgtgtgcttgttgttgttgcgttgctgcagCGATTGGGTTCAACGTGGAGACGGTGCAGTACAACAACATCAAGTTCCAAGTCTGGGATCTCG

upper sequence: AT2G24765.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G147726_T01 (Zea mays), 3'ss of exon 2
gtatgtatctaatctctcgattattgtatagattatggatctagtttatgtatcgtgattttacgaattttggttttgatctgatctttgcagCTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG
||  || ||| || |  ||| |      |   |  ||   || ||| | ||     ||||| | |  |  ||       | ||    ||||||| |||||||| ||||||||||| |||||||||||||| |||||||| || || |||||| | |
gtgagt-tctgatttaccgagt----cgtcattcctgttgctggttgaagttgttggatttgatg--tggtgccccgcgtgtg----ttgcagCAATTGGATTCAACGTTGAGACGGTGCAGTACAACAACATCAAGTTCCAAGTATGGGATCTTG

upper sequence: AT2G24765.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S78_17V6.1 (Physcomitrella patens), 3'ss of exon 2
------------gtatgtatctaatctctcgattattgtatagattatggatctagtttatgtat-cgtgattttacgaattttggttttgatctgatctttgcagCTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG
             |     | ||    |  | |   |  ||   |    ||  |  | | || || | ||||   |   |||   || |||   || |  ||||||||||||| ||||| || ||||||||||| ||||||||||| || ||||| || |||||| |||
aaacttagaggctttgacgtgtatatgcatgttacctccattcgtcccagacgtgttgtgtgcatacctgatcgca---attcctgtattg---tggtggttgcagCTATTGGCTTTAATGTGGAGACTGTGCAATACAACAATATTAAATTTCAAGTTTGGGATCTAG

upper sequence: AT2G24765.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S271_49V6.1 (Physcomitrella patens), 3'ss of exon 2
-gtatgtatcta-atctctcgattattgtatagattatggatctagttta----tgtatcgtgat-tttacgaattttggttttgatctgatctttgcagCTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG
  |||  |   | ||   | ||    | || | | |  ||||| |  |||    | |||| | |  | |    |  ||  |||   | || |  | ||||||||||| ||||| || |||||||||   ||||||||||| |||||||| |||||||||||||
tttataaacaaagatgctttgacgtgtataaaaaatcaggatcgacgttaaacatctatcctcacatctgatcacatttctttgtttgtggtggtcgcagCTATTGGTTTTAATGTGGAGACTGTGACATACAACAATATAAAGTTTCAAGTCTGGGATTTAG

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|86084655|gb|DR380414.1|DR380414
EST:     ATCGGCTTCAGATGGGGGAAGTTGTCTCTACGATTCCGA                         CTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGG
genomic: ATCGGCTTCAGATGGGGGAAGTTGTCTCTACGATTCCGAgtatgtatct ... atctttgcagCTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGG
EST: gi|125249151|gb|EL263236.1|EL263236
EST:     ATGGGGGAAGTTGTCTCTACGATTCCGA                         CTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGG
genomic: ATGGGGGAAGTTGTCTCTACGATTCCGAgtatgtatct ... atctttgcagCTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGG
EST: gi|164192937|gb|EL986987.1|EL986987
EST:     ATCGGCTTCAGATGGGGGAAGTTGTCTCTACGATTCCGA                         CTATTGGATTTAACGTTGAGACTGTGCAGTAC
genomic: ATCGGCTTCAGATGGGGGAAGTTGTCTCTACGATTCCGAgtatgtatct ... atctttgcagCTATTGGATTTAACGTTGAGACTGTGCAGTAC
EST: gi|125296023|gb|EL310108.1|EL310108
EST:     CTTCAGATGGGGGAAGTTGTCTCTACGATTCCGA                         CTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGG
genomic: CTTCAGATGGGGGAAGTTGTCTCTACGATTCCGAgtatgtatct ... atctttgcagCTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGG
EST: gi|124708200|gb|EH799602.1|EH799602
EST:     TTGTCTCTACGATTCCGA                         CTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGG
genomic: TTGTCTCTACGATTCCGAgtatgtatct ... atctttgcagCTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctagtttatgtatcgtgattttacgaattttggttttgatctgatctttgcagCTATTGGATTTAACGTTGAGACTGTGCAGTACAACAATATCAAGTTTCAGGTCTGGGATTTAG
                                        atctgat  putative branch site (score: 4)
                                              tctttgc  CT-rich tract
                   attttacgaatttt  TA-rich tract