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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggaggtggcgaggggtacttgggacctgggaagcggtgggcgcaggcgcaggcagatgctgctggttgccacccgcgcactcatgcgactgccgggcgacgtccagtgtaattgtgcgctgaccgtgcccatgctcccttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGAGGCAAGAAGAAGGGCGGGTGCTGCAGCTAAAGCGTGTGCAGCTGGGCGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04353
intron # 6
splice site 3'
intron type U2

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|161804362|gb|FC089704.1|FC089704
EST:     ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAG                         ATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGAC
genomic: ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAGgtgggaggtg ... ttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGAC
EST: gi|16434796|gb|BM000016.1|BM000016
EST:     ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAG                         ATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
genomic: ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAGgtgggaggtg ... ttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
EST: gi|161815543|gb|FC101788.1|FC101788
EST:     ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAG                         ATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACTGA
genomic: ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAGgtgggaggtg ... ttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
EST: gi|23363627|gb|BU651447.1|BU651447
EST:     ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAG                         ATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
genomic: ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAGgtgggaggtg ... ttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
EST: gi|161798278|gb|FC083487.1|FC083487
EST:     ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAG                         ATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
genomic: ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAGgtgggaggtg ... ttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
EST: gi|23363628|gb|BU651448.1|BU651448
EST:     ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAG                         ATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
genomic: ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAGgtgggaggtg ... ttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
EST: gi|161821621|gb|FC108746.1|FC108746
EST:     ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAG                         ATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
genomic: ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAGgtgggaggtg ... ttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
EST: gi|23359663|gb|BU647483.1|BU647483
EST:     CCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAAACCG-CCAAAG                         ATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACG
genomic: CCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAA-CCGGCCAAAGgtgggaggtg ... ttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACG
EST: gi|15694779|gb|BI719084.1|BI719084
EST:     ATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAG                         ATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
genomic: ATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAGgtgggaggtg ... ttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
EST: gi|10772153|gb|AV622976.1|AV622976
EST:     ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAG                         ATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA
genomic: ACCACATCGTCAGCAAGAAGGTGCTGGACAGCGAAGACAACCGGCCAAAGgtgggaggtg ... ttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggcgacgtccagtgtaattgtgcgctgaccgtgcccatgctcccttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGAGGCAAGAAGAAGGGCGGGTGCTGCAGCTAAAGCGTGTGCAGCTGGGCGG
                       cgctgac  putative branch site (score: 3)
                                        ctcccttgcct  putative PPT
             tgtaatt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggaggtggcgaggggtacttgggacctgggaagcggtgggcgcaggcgcaggcagatgctgctggttgccacccgcgcactcatgcgactgccgggcgacgtccagtgtaattgtgcgctgaccgtgcccatgctcccttgcctacagATTGGCGAGGGTCGCGATGTTATCGTGATCGACAACGCGCACGACGACGGAGGCAAGAAGAAGGGCGGGTGCTGCAGCTAAAGCGTGTGCAGCTGGGCGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG