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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggctgatactggattatgcctgtatcactttacaccctatctgcctcatacggaagcatactcacgttactcatgggtcatgatatgttcattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT

Basic information

species Zea mays
transcript GRMZM2G178244_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G178244_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g64650.1 (Oryza sativa), 3'ss of exon 3
-----tggctgatactggattatgcctgtatcactttacaccctatctgcctcatacggaagcatactcacgttactcatgggtcatgatatgttcattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT
     | |    |  |||   |  |    |  |||| | || |   |||| || | |   |   |  ||   | |   |     | |||| |  | ||||||||||||||||| || ||||||||  |||||||||| ||||||||||||||||||||||||||||| || 
tcttcttgtccttgttggtccaaactgccagtacttaa-acacgcactgcatcctgcatgaatgttttcttatgagataa----cttgatttcattattttgtagGACCCTGCAGAGGCTGACAAGTTAATGAAAATCCAGAGGGACTTGGATGAAACAAAAATTATCCTA

upper sequence: GRMZM2G178244_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G19950.1 (Glycine max), 3'ss of exon 3
------------------------------------------------------------tggctgatactggattatgc-ctgtatcactttacaccctatctgcctcat-acggaagcatactcacgtta--ctcatgggtcatgatatgttcattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT
                                                            | |   | | ||    ||   ||  ||    |||||  ||     |||  | ||  ||  ||       | |  | | |   ||      |||  | | |  |||| ||||| || ||||||||  | |||||||||||||| || ||||||||||||||||| || |||
gcatgtaaatacctcttttatgttgtatgagcttcagttagaggagttgttgatttttgtttgaaaaaattgttcaatattctaaattgtgttacattctgctaacctttttacacaattatgtatgactcaaacccctttatctgttcctgtcaaatcttcagGATCCTGCAGAGGCTGACAAGTTGATGAAAATTCAGAGAGAGTTGGATGAAACAAAAATCATCCTT

upper sequence: GRMZM2G178244_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv14s0060g00090.t01 (Vitis vinifera), 3'ss of exon 3
--------------------------------tggctgatactgg-attatgcctgtatcactttacaccctatctgcctcatacggaagc---atactcacgttactcatgggtcatg---atatgttcattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT
                                  | |  | |||    | |   |  |  | | |||    | ||      ||    |      |||     | ||   |||     |    | |  ||  || |  |||||||||| || ||||| ||  |  |||||||||||||||| |||||||| || |||||||| |||
gtacttttctgtcttgttaagaaatttttattcagtttcttctgttgctttctttaaaatattctactgggtgtcgataagattttaagcttcaatatcttggctaaatatgatctgtttgcacaaatttcttcttcagGACCCTGCAGAGGCTGATAAGTTGCTGAAAATTCAGAGGGATTTGGATGAGACCAAAATTATCCTT

upper sequence: GRMZM2G178244_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv11s0206g00130.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------------------------tggctgatactggattatgc-ctgtatca-ctttacaccctatctgcctcatacggaagcatactcacgttactcatgggtcatgata-tgttcattttgt----------------agGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT
                                                             |   |  |  || || ||   || | |||  ||||     |   | | || ||  |   ||  ||   || | | ||    ||  ||| | || ||| |||                |||| |||||||| ||||| ||  |  ||||||||||||| || ||||||||||| ||||||||||||
gtatttctccacatttttctcattttgtttgttgcgtcataaggctgcatataggtacaattaattttttttgcatcataaactatttcaattttatttgttcctttcttcttaatggttcaagctatggtcatttataacccaaaatactttttattctgttctctttgaaatcttcagGATCCTGCGGAGGCTGATAAGTTGTTGAAAATTCAGAGAGAGTTGGATGAAACTAAAATTATTCTT

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|71760321|gb|DR958258.1|DR958258
EST:     CAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGATAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: CAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|211043823|gb|FL450886.1|FL450886
EST:     GGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: GGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|4827639|gb|AI668331.1|AI668331
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|40303527|gb|CK347914.1|CK347914
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|31351801|gb|CD436158.1|CD436158
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|148986861|gb|EE030663.2|EE030663
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|211253577|gb|FL134850.1|FL134850
EST:     ATGGAACTCAACAGTGGTCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|211369234|gb|FK956898.1|FK956898
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAA-TTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|76020500|gb|DT947670.1|DT947670
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|13381899|gb|BG458574.1|BG458574
EST:     TGGAACTCAACAGTGGGCTTTCCTGACAGACGCCNNNNNNNNNATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: TGGAACTCAACAGTGGGCTTTCCTGACAGACGCC-TTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|29947409|gb|CB816642.1|CB816642
EST:     ATGGAACTCAGCAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|211369238|gb|FK956902.1|FK956902
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTAGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|32831700|gb|CD971378.1|CD971378
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|149005487|gb|EE040045.2|EE040045
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|60351214|gb|DN218187.1|DN218187
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|211374547|gb|FK956922.1|FK956922
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|148974489|gb|EE025272.2|EE025272
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|94478008|gb|EB706966.1|EB706966
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|211218979|gb|FL468672.1|FL468672
EST:     TGG-ACTTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: TGGAAC-TCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|101401867|gb|EB822568.1|EB822568
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|83279031|gb|DV943039.1|DV943039
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|78109501|gb|DV527917.1|DV527917
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|78027635|gb|DV496022.1|DV496022
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|211253579|gb|FL134852.1|FL134852
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|211369239|gb|FK956903.1|FK956903
EST:     AT-GAACTCAACAGT-GGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GA-CCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTAGGATGAW
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|26557704|gb|CA829939.1|CA829939
EST:     CAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: CAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|76933701|gb|DV173556.1|DV173556
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|32829971|gb|CD969649.1|CD969649
EST:     ATGGAATTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|32831608|gb|CD971286.1|CD971286
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|76933699|gb|DV173555.1|DV173555
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|91054889|gb|EB165307.1|EB165307
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|148974488|gb|EE025271.2|EE025271
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|211369240|gb|FK956904.1|FK956904
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|60351615|gb|DN218588.1|DN218588
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|16916951|gb|BM073059.1|BM073059
EST:     CTTGGCAAGATTTCAG                         GCCCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: CTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|211253581|gb|FL134854.1|FL134854
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAG
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAG
EST: gi|60397788|gb|DN230604.1|DN230604
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|60394084|gb|DN226954.1|DN226954
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|148999174|gb|EE036091.2|EE036091
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|71439602|gb|DR820652.1|DR820652
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGATAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|149081182|gb|EE170291.2|EE170291
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|45567196|gb|CK985452.1|CK985452
EST:     ACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGTGACTTGGATGAA
genomic: ACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|211371891|gb|FK956915.1|FK956915
EST:     TGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGNCA-GATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATGCAGAGGGACTTGGATGAA
genomic: TGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGG-CAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
EST: gi|148999175|gb|EE036092.2|EE036092
EST:     ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAG                         GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA
genomic: ATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAA

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: 48 (upstream exon), 42 (downstream exon)
Score: 101

TGATGAGTACCAGAAGGCTTTTGGGGACTCCTGGAAATCTGCTACTGCAGATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 179

TGATGAGTACCAGAAGGCTTTTGGGGACTCCTGGAAATCTGCTACTGCAGATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 190

TGATGAGTACCAGAAGGCTTTTGGGGACTCCTGGAAATCTGCTACTGCAGATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 141

TGATGAGTACCAGAAGGCTTTTGGGGACTCCTGGAAATCTGCTACTGCAGATGGAACTCAACAGTGGGCTTTCCTGACAGACGCCTTGGCAAGATTTCAGgttaaacctt ... cattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcatacggaagcatactcacgttactcatgggtcatgatatgttcattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT
              tactcac  putative branch site (score: 141)
                                           ttcatttt  putative PPT
                                           ttcatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggctgatactggattatgcctgtatcactttacaccctatctgcctcatacggaagcatactcacgttactcatgggtcatgatatgttcattttgtagGACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT

-ggctgat
- - - - - - - - - gcctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatact