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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgcccttttcaatctttacttacattgctattttgagcccatgataaatgtatcaaaacctaagcttggcctcacatatgcagtatctatgtgata...

Basic information

species Zea mays
transcript GRMZM2G169316_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G169316_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os01g63160.1 (Oryza sativa), 5'ss of exon 1
ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgcccttttcaatctttacttacattgctattttgagcccatgataaatgt-atcaaaacctaagcttggcctcacatatgcagtatctatgtgata-------
|||||||| ||||| || || || || ||||||||||||||||||||||| |||||||| || || |||||||||||||||||||||||||| |||||||||||   |         | || | | || |  ||| |  | || ||   | | || ||   ||||| |            || ||   | |||||| |  |       
ACGCTGATAGCGCGCGGGATACCCGGGCGCTCCGGCAAGTCCTGCCGCCTCCGCTGGTGTAACCAACTCGACCCCCAAGTCAAGCGCAAGCCCTTCACTGgtacaatctg-------cctttcatccagtagtatctgtatcctataggatacgtgatgttaaccttaatccaaaga-gtatttgtcttgtctatgaggcaatgctag

upper sequence: GRMZM2G169316_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA03G15810.1 (Glycine max), 5'ss of exon 1
ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct--tttcaatctttacttacattgctattttgagcccatgataaatgtatcaaaacctaagcttggcctcacatatgcagtatctatgtgata
|  || |||||||| || |||   ||  | ||||||||||| ||||| || || |||||||| |||||||| |||  |||||||||||| || ||||| |||||     |  ||| ||| |  | ||  |||   | ||||      |  |   | |     ||  | |  ||   |  | ||   |  |     |||    
AGCCTCATCGCGCGCGGGATCAGCGGAAGATCCGGCAAGTCGTGCCGGCTCCGGTGGTGCAACCAGCTCGATCCCGCAGTCAAGCGCAAACCCTTCACCGgtacgtaattggtttgaatttgaatttgaatt-tgaatttggttttgtt-tcggtatggtttaatttgatttttttcgaaaattgaccttccgagtgtagag

upper sequence: GRMZM2G169316_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA01G26650.1 (Glycine max), 5'ss of exon 1
ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtacc-gcccttttcaatctttacttacattgctattttgagcccatgataaatgtatcaaaacctaagcttggcctcacatatgcagtatctatgtgata-
|  || || ||||| || |||   ||  | ||||||||||| ||||| || || |||||||| ||||| ||||||   ||||||||||| || ||||| ||||||    |  ||     || | ||   ||  | ||| | |       ||| |  |       | ||  |||  ||       | ||     |      | 
AGCCTCATTGCGCGCGGAATCAGCGGAAGATCCGGCAAGTCATGCCGGCTCCGGTGGTGCAACCAGCTTGACCCCGCCGTCAAGCGCAAACCCTTCACCGgtacctaatcggtttggaattgaattttgtt-ttgtttcg-gtttggtttaatttgaatgttttcgaaaattgatctttggagagtagggatgagaatgcag

upper sequence: GRMZM2G169316_T01 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA14G06870.1 (Glycine max), 5'ss of exon 1
ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct---tttcaatctttacttacattgctattttgagcccatgataaatgtatcaaaacctaagcttggcctcacatatgca-gtatctatgtgata
|   |||||||||| ||  | ||||| |||||||||||||| ||||| || || ||||| |||||||| |||||    || || |||||||| ||||||||||      |    | |  |    ||| | |      |||| || | ||| |    | || |     |||| || |      ||  | | || | | |||    
AGCATGATCGCGCGGGGAGTGCCGGGACGCTCCGGCAAGTCGTGCCGGCTCCGGTGGTGTAATCAGCTGGACCCTTGCGTGAAACGCAAGCCCTTCACTGgtaattaattaatctccgtttcacactgatacgctgtttttaagtcgatggttctagaattagggtataaggttagaactgtatgagtaagtgtgtgtgt----

upper sequence: GRMZM2G169316_T01 (Zea mays), 5'ss of exon 1
lower sequence: Vv08s0007g01540.t01 (Vitis vinifera), 5'ss of exon 1
ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgcccttttcaatctttacttacattgctattttgagcccatgataaatgtatcaaaacctaagcttggcctcacatatgcagtatctatgtgata-
|  |||||||| ||||| ||  | ||  | ||||||||||||||||| ||||||||||| |||||||| ||||||   || ||||||||||| || |||||||    || | || ||||  | |    || |  ||         |  |||| |  ||           | |   ||  ||  |  ||   |||    || 
AGTCTGATCGCCCGTGGAATTGCTGGGAGATCCGGCAAGTCCTGCCGGCTGCGCTGGTGTAATCAGCTTGACCCCTCTGTTAAGCGCAAGCCCTTTACTGgtaatctccatgtcgatctaaattggtttttcatttccagaatttttttaaaagcttcttttttctttttggatttcggat-cgaggttcatatcgcttaa

upper sequence: GRMZM2G169316_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S72_143V6.1 (Physcomitrella patens), 5'ss of exon 2
ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgcccttttcaatctttacttacattgctattttgagcccatgataaatgtatcaaaacctaagcttggcctcacatatgcagtatctatgtgata----
|  ||||| |||||||||||||| ||||| ||||| ||||| ||||| |||||||||||||| |||||  | ||    ||||||||||| || ||||| ||| |      |||   |  |  ||   | || | |  |     |||     ||||       |||  ||    ||||||  |    ||||  | ||   |    
AGTCTGATTGCGCGTGGCATCCCTGGCCGGTCCGGGAAGTCGTGCCGTCTGCGCTGGTGCAACCAGCTTAATCCTGGCGTCAAGCGCAAACCCTTCACAGgtgcaatttcttttcgttgtcgct---actggtctcctttcatcatacccgatgtcattcttcctctgcaacccctcac-cagattgtattgaggtcgaattct

upper sequence: GRMZM2G169316_T01 (Zea mays), 5'ss of exon 1
lower sequence: PP1S53_216V6.1 (Physcomitrella patens), 5'ss of exon 2
ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgcccttttcaatctttacttacattgctattttgagcccatgataaatgtatcaaaacctaa--gcttggcc--tcacatatgcagtatctatgtgata
|  ||||||||||| |||||||||||||| || || ||||| ||||| || |||||||| || |||||| | ||    || ||||| ||||| ||||| |||         |    |  ||| ||   ||  | | ||   ||| | |    |    ||   |||    ||   |||   |  | |   ||| | |        
AGCCTGATCGCGCGCGGCATCCCGGGCCGGTCGGGGAAGTCGTGCCGTCTCCGCTGGTGTAACCAGCTCAATCCTGGTGTTAAGCGGAAGCCCTTCACAGgttgttgttgctgttgttgttatttttctt-ttttcttatccccttaaattgtaccccatgtcctctccgcactgccaaccttacacatagtgttttcaga---

upper sequence: GRMZM2G169316_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ26670 (Selaginella moellendorffii), 5'ss of exon 1
ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgcccttttcaatctttacttacattgctattttgagcccatgataaatgtatcaaaacctaagcttggcctcacatatgcagtatctatgtgata
                                 || || || ||||||||||||||||||||||||||| | ||    |||||| | || || |||||||||   |   ||     ||||  ||  |  | | |    || ||| | |    | |       |||  |||    || ||    ||  |  |||  ||   
---------------------------------GGAAAATCGTGCCGCCTGCGCTGGTGCAATCAGCTCAATCCTGTTGTCAAGAGAAAACCCTTCACTGgtga-gtagttcgttgtctt-gctccccctccca---agaaccc-taaagtctttgcgtgtccctccgct-aaactaactggcgcgctg-ctaaatgtag

upper sequence: GRMZM2G169316_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ26955 (Selaginella moellendorffii), 5'ss of exon 1
ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgcccttttcaatctttacttacattgctattttgagcccatgataaatgtatcaaaacctaagcttggcctcacatatgcagtatctatgtgata
                                 || || || ||||||||||||||||||||||||||| | ||    |||||| | || || |||||||||   |   ||     ||||  ||  |  | | |    || ||| | |    | |    |  |||  |||    || ||    ||  |  |||  ||   
---------------------------------GGAAAATCGTGCCGCCTGCGCTGGTGCAATCAGCTCAATCCTGTTGTCAAGAGAAAACCCTTCACTGgtga-gtagttcgttgtctt-gctccccctccca---agaaccc-taaagtctttgcgtatccctccgct-aaactaactggcgcgctg-ctaaatgtag

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|78116471|gb|DV534858.1|DV534858
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|91872582|gb|EB402539.1|EB402539
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|211289680|gb|FL246435.1|FL246435
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGTGCACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|94473330|gb|EB702288.1|EB702288
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|50336100|gb|CO531226.1|CO531226
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|71772310|gb|DR970246.1|DR970246
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|211291822|gb|FL246452.1|FL246452
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|50333342|gb|CO528468.1|CO528468
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|78111597|gb|DV529994.1|DV529994
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCG
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCG
EST: gi|148983364|gb|EE029350.2|EE029350
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCCCATTATAATGGCACCTCATGCTGTCCATGGG
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGG
EST: gi|211293960|gb|FL246463.1|FL246463
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGGACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|71421101|gb|DR805300.1|DR805300
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|78120349|gb|DV538733.1|DV538733
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|78109293|gb|DV527709.1|DV527709
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|71768278|gb|DR966215.1|DR966215
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|71430709|gb|DR811759.1|DR811759
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|93283304|gb|EB675568.1|EB675568
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|71768526|gb|DR966463.1|DR966463
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|71434622|gb|DR815672.1|DR815672
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACC-CGATTATAATGGCAGCTCATGCTGTCCATGGGAACAAG
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGC-ATTATAATGGCAGCTCATGCTGTCCATGGGAACAAG
EST: gi|76910221|gb|DV163761.1|DV163761
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|89761007|gb|DY689192.1|DY689192
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|71446116|gb|DR827166.1|DR827166
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|37418605|gb|CF646972.1|CF646972
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|91048517|gb|EB158935.1|EB158935
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
EST: gi|211291823|gb|FL246453.1|FL246453
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         G
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcag-
EST: gi|211291823|gb|FL246453.1|FL246453
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         G
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcag-
EST: gi|211289682|gb|FL246437.1|FL246437
EST:     GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTG                         AAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT
genomic: GCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGT

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), 43 (downstream exon)
Score: 43

ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGTGGGCATCTATCGCAAAGCTTTTGGATGGGAGAACAGACAATGCCATCAA


Block sizes: 47 (upstream exon), 35 (downstream exon)
Score: 12

ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGTGGGCATCTATCGCAAAGCTTTTGGATGGGAGAACAGACAATGCCATCAA


Block sizes: 49 (upstream exon), 42 (downstream exon)
Score: 18

ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGTGGGCATCTATCGCAAAGCTTTTGGATGGGAGAACAGACAATGCCATCAA


Block sizes: 47 (upstream exon), 41 (downstream exon)
Score: 33

ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgccct ... ttggctgcagAAGAGGAGGACCGCATTATAATGGCAGCTCATGCTGTCCATGGGAACAAGTGGGCATCTATCGCAAAGCTTTTGGATGGGAGAACAGACAATGCCATCAA


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACGCTGATCGCGCGTGGCATCCCGGGCCGCTCCGGCAAGTCCTGCCGCCTGCGCTGGTGCAATCAGCTCGACCCCCAAGTCAAGCGCAAGCCTTTCACTGgtaccgcccttttcaatctttacttacattgctattttgagcccatgataaatgtatcaaaacctaagcttggcctcacatatgcagtatctatgtgata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC