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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctctatttaatgtttgttcctgtctgataatttgacacccttggtacggtgatgaaattaatttatgttttcagttacatcgttcctttcttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAAGGAGTGCCAATGGCTCCTCCAGACCCAATTCTTGGGGTTTCTGAGGCCT

Basic information

species Zea mays
transcript GRMZM5G836910_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G836910_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g55420.1 (Oryza sativa), 3'ss of exon 2
-ctctatttaatgtttgttcctgtctgataatttgacacccttggtacggtgatgaaattaatttatgttttcagtta-catcgttcctttctta----aatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAAGGAGTGCCAATGGCTCCTCCAGACCCAATTCTTGGGGTTTCTGAGGCCT
     || |||  ||     |||| |    ||||   |  |   ||   |       ||    || || |||   ||| |||| || | ||  ||      ||||||| ||||| ||||||||||||||||||||||| ||||| |||||||||||||||||||| ||||| ||||||||||||||||| |||||||| || || |
gagaaatataaaattga---ctgtatcgagattt---attccatgtcaagcttcagcatatggttgtgctttggattaacatcctttcattgctattctgttgcagAATTTTGGACGTGTCATGATGGCCCTTGCAGTAGATGTCTCTCGTTTTGAAGGAGTGCCGATGGCCCCTCCAGACCCAATTCTCGGGGTTTCAGAAGCAT

upper sequence: GRMZM5G836910_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 4
-----ctctatttaatgtttgttcctgtctgataatttgacacccttggtacggtgatgaaattaatttatgttttcagttacatcgttcctttcttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAAGGAGTGCCAATGGCTCCTCCAGACCCAATTCTTGGGGTTTCTGAGGCCT
        | | ||   |||       | ||   |   ||     || ||| | |  ||   ||   || || | | ||||  ||  ||  ||| |    |||||   ||||||||  | |  |||||  |||||||  ||   |||||||||||||| ||  ||||||| ||||| || ||||||||||| ||||||||||| |
gatggtcttttataggatttaaataaatttggggag--gatgaaatttgtatg-tagtgtttttgtcttctgatctaagttttat--ttattttttggtttgcagTCTTTTGGCCGGATAAATATGGCTATTGCAGTCAATACCTCTCGTTTTGAAGGTGTAACAATGGCCCCTCCTGATCCAATTCTTGGAGTTTCTGAGGCTT
















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|211140316|gb|FL028761.1|FL028761
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211235881|gb|FL028766.1|FL028766
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211238121|gb|FL028781.1|FL028781
EST:     TAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TAACCAGGCGAGAACTAGAACTGGCTGCCGCGTC-GGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211238133|gb|FL028793.1|FL028793
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211240363|gb|FL028799.1|FL028799
EST:     TAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGSATCCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCAT-CACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211235883|gb|FL028768.1|FL028768
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|94477439|gb|EB706397.1|EB706397
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|71440750|gb|DR821800.1|DR821800
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211235892|gb|FL028777.1|FL028777
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211240361|gb|FL028797.1|FL028797
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|149107658|gb|EE189537.2|EE189537
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211235886|gb|FL028771.1|FL028771
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211140315|gb|FL028760.1|FL028760
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|149112604|gb|EE191381.2|EE191381
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211238128|gb|FL028788.1|FL028788
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|78104308|gb|DV522726.1|DV522726
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211235895|gb|FL028780.1|FL028780
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|76289791|gb|DV029359.1|DV029359
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211140308|gb|FL028753.1|FL028753
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|148941508|gb|EC886438.2|EC886438
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211235888|gb|FL028773.1|FL028773
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211140313|gb|FL028758.1|FL028758
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211240365|gb|FL028801.1|FL028801
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211140307|gb|FL028752.1|FL028752
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|78114229|gb|DV532618.1|DV532618
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211240360|gb|FL028796.1|FL028796
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211140314|gb|FL028759.1|FL028759
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211235884|gb|FL028769.1|FL028769
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|149000841|gb|EE038069.2|EE038069
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211240366|gb|FL028802.1|FL028802
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211139377|gb|FL028748.1|FL028748
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211235891|gb|FL028776.1|FL028776
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211140317|gb|FL028762.1|FL028762
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211238126|gb|FL028786.1|FL028786
EST:     CATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: CATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|71767561|gb|DR965498.1|DR965498
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211139376|gb|FL028747.1|FL028747
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211140306|gb|FL028751.1|FL028751
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATTTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211238122|gb|FL028782.1|FL028782
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
EST: gi|211238131|gb|FL028791.1|FL028791
EST:     TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAG                         AACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA
genomic: TTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 66

GTGTTTGGAGGAGTTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAAGGAGTGCCAATGGCTCCTCCAGACCCAATTCTTGGGGTTTCTGAGGCCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 497

GTGTTTGGAGGAGTTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAAGGAGTGCCAATGGCTCCTCCAGACCCAATTCTTGGGGTTTCTGAGGCCT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 62

GTGTTTGGAGGAGTTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAAGGAGTGCCAATGGCTCCTCCAGACCCAATTCTTGGGGTTTCTGAGGCCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 351

GTGTTTGGAGGAGTTAACCAGGCGAGAACTAGAACTGGCTGCCGCGTCGGCATCACGCGGAAGgtgaccgcct ... ttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAAGGAGTGCCAATGGCTCCTCCAGACCCAATTCTTGGGGTTTCTGAGGCCT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acggtgatgaaattaatttatgttttcagttacatcgttcctttcttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAAGGAGTGCCAATGGCTCCTCCAGACCCAATTCTTGGGGTTTCTGAGGCCT
          aattaat  putative branch site (score: 351)
                                catcgttcctttctt  putative PPT
         aaattaatttatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctctatttaatgtttgttcctgtctgataatttgacacccttggtacggtgatgaaattaatttatgttttcagttacatcgttcctttcttaaatgcagAACTTTGGCCGTGTCATGATGGCCCTTGCAGTGGATGTTTCTCGTTTTGAAGGAGTGCCAATGGCTCCTCCAGACCCAATTCTTGGGGTTTCTGAGGCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - tgtttgt
- - - - - - - - - -ctgtctg
- - - - - - - - - - - - - - - - - - - - - - - -ggtgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttatgtt