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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcctaacctcgcaaccccctgccttgtgcctcctgccttgtgcctcctgccttgtgcctcctgccttgtgcctcctgccttgtgcctcctgcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAGCTGCAGCCCCAGGACTTCGACGTGTTCTCCGGCCCCTACATCAAGAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98596
intron # 7
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|8287231|gb|BE024790.1|BE024790
EST:     CCCTGCTGGACAAGCTGGCTGACAACGTGGCTGACTACGTCCGCTACCAG                         GCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
genomic: CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAGgtgcgtgcgt ... gcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
EST: gi|161798329|gb|FC083512.1|FC083512
EST:     GTGGATGATGCGCCAGGCCGGCCGCTACCAGAAG                       
genomic: GTGGATGATGCGCCAGGCCGGCCGCTACCAGAAGgtgagcggag ... acacccat
EST: gi|10768967|gb|AV619792.1|AV619792
EST:     CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAG                         GCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
genomic: CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAGgtgcgtgcgt ... gcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
EST: gi|6541232|gb|AV387016.1|AV387016
EST:     CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAG                         GCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
genomic: CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAGgtgcgtgcgt ... gcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
EST: gi|15370170|gb|BI529596.1|BI529596
EST:     CCCTGCTGGACAAGCTGGCTGACAACGTGGCTGACTACGTCCGCTACCAG                         GCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
genomic: CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAGgtgcgtgcgt ... gcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
EST: gi|15698489|gb|BI722794.1|BI722794
EST:     CCCTGCTGGACAAGCTGGCTGACAACGTGGCTGACTACGTCCGCTACCAG                         GCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
genomic: CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAGgtgcgtgcgt ... gcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
EST: gi|10772473|gb|AV623296.1|AV623296
EST:     CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAG                         GCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
genomic: CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAGgtgcgtgcgt ... gcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
EST: gi|15696926|gb|BI721231.1|BI721231
EST:     CCCTGCTGGACAAGCTGGCTGACAACGTGGCTGACTACGTCCGCTACCAG                         GCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
genomic: CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAGgtgcgtgcgt ... gcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
EST: gi|161799638|gb|FC083859.1|FC083859
EST:     AGGTGGAGCGCCCGCCCGTGTGGATGATGCGCCAGGCCGGCCGCTACCAGAAG                       
genomic: AGGTGGAGCGCCCGCCCGTGTGGATGATGCGCCAGGCCGGCCGCTACCAGAAGgtgagcggag ... acacccat
EST: gi|15368002|gb|BI527428.1|BI527428
EST:     CCCTGCTGGACAAGCTGGCTGACAACGTGGCTGACTACGTCCGCTACCAG                         GCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
genomic: CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAGgtgcgtgcgt ... gcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
EST: gi|15367759|gb|BI527185.1|BI527185
EST:     CCCTGCTGGACAAGCTGGCTGACAACGTGGCTGACTACGTCCGCTACCAG                         GCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
genomic: CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAGgtgcgtgcgt ... gcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
EST: gi|10779613|gb|AV636293.1|AV636293
EST:     CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAG                         GCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
genomic: CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAGgtgcgtgcgt ... gcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAG
EST: gi|16072373|gb|BI874369.1|BI874369
EST:     CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAG                         GCCGACGNCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGA
genomic: CCCTGCTGGACAAGCTGGCTGACAACGTGGCCGACTACGTCCGCTACCAGgtgcgtgcgt ... gcacgcacagGCCGACG-CCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgccttgtgcctcctgccttgtgcctcctgccttgtgcctcctgcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAGCTGCAGCCCCAGGACTTCGACGTGTTCTCCGGCCCCTACATCAAGAAG
                                       cctcctgc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcctaacctcgcaaccccctgccttgtgcctcctgccttgtgcctcctgccttgtgcctcctgccttgtgcctcctgccttgtgcctcctgcacgcacagGCCGACGCCGGCGCCCAGGTGGTGCAGATCTTCGACTCGTGGGCCAGCGAGCTGCAGCCCCAGGACTTCGACGTGTTCTCCGGCCCCTACATCAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - -caacccc
- - - - - - - - - - - - tgtgcct