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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGACCAGCTGCGACCTGAAGGAGCTCGTGGCCAAGTTCATCCCCGAGTCCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagggcgcaggggcggggcggcgcggagccgggtgggccgtgcctgggcgttgcgggggtgggcagtggttcaggctgggggctggttggcggc...

Basic information

species Chlamydomonas reinhardtii
transcript EDP08964
intron # 6
splice site 5'
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|10783024|gb|AV639696.1|AV639696
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCCAA-TTCGACAT
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCC-AAGTTCGACAT
EST: gi|161820374|gb|FC108695.1|FC108695
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|10785215|gb|AV641887.1|AV641887
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161823693|gb|FC109577.1|FC109577
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161815529|gb|FC104868.1|FC104868
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161818692|gb|FC105193.1|FC105193
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161816056|gb|FC103777.1|FC103777
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161815877|gb|FC103461.1|FC103461
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|23361489|gb|BU649309.1|BU649309
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCGTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|23363616|gb|BU651436.1|BU651436
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161817133|gb|FC101580.1|FC101580
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161817411|gb|FC104939.1|FC104939
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161821993|gb|FC110301.1|FC110301
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161809824|gb|FC094671.1|FC094671
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161810959|gb|FC094421.1|FC094421
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|23363632|gb|BU651452.1|BU651452
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACAT
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACAT
EST: gi|161823841|gb|FC109608.1|FC109608
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161810655|gb|FC096821.1|FC096821
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161811903|gb|FC096093.1|FC096093
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161804409|gb|FC092728.1|FC092728
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|22054311|gb|BQ811300.1|BQ811300
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACAT
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGG-TGAAGGTGCTGAAGGCGCCCAAGTTCGACAT
EST: gi|161794527|gb|FC081948.1|FC081948
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAATTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161804433|gb|FC092739.1|FC092739
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|23361960|gb|BU649796.1|BU649796
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAAGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|23364568|gb|BU652388.1|BU652388
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161793095|gb|FC078085.1|FC078085
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|161799842|gb|FC087820.1|FC087820
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACATC
EST: gi|16073173|gb|BI875169.1|BI875169
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCG
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCG
EST: gi|22075650|gb|BQ824426.1|BQ824426
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCT
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCT
EST: gi|16072683|gb|BI874679.1|BI874679
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCAT
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCAT
EST: gi|10782638|gb|AV639310.1|AV639310
EST:     CATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGGCAG                         AACACCTTCATCCGCAAGGGTGAAGGTGCTGAAGGCGCCCAAGTTCGACA
genomic: CATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTG-CAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGG-TGAAGGTGCTGAAGGCGCCCAAGTTCGACA
EST: gi|6544782|gb|AV390566.1|AV390566
EST:     CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAG                         AACACCTTCATCCGCAAGGTGAAGGTGCTG
genomic: CCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagg ... acaatcacagAACACCTTCATCCGCAAGGTGAAGGTGCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCGACCAGCTGCGACCTGAAGGAGCTCGTGGCCAAGTTCATCCCCGAGTCCATCGGCAAGGACATTGAGAAGTCGTGCCAGGGCATCTACCCCCTGCAGgtgggccagggcgcaggggcggggcggcgcggagccgggtgggccgtgcctgggcgttgcgggggtgggcagtggttcaggctgggggctggttggcggc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgggcgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggttgg