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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatgtgcatactttagtctgtgcgagcaaatctttgaatatatgggaatctgacaacaattgctaactgtgggtcctttatgctgtaatattttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAG

Basic information

species Zea mays
transcript GRMZM2G178244_T01
intron # 4
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 4
lower sequence: LOC_Os01g64650.2 (Oryza sativa), 3'ss of exon 4
----ttatgtgcatactttagtctgtg-cgagcaaatctttgaatatatgggaatctgacaacaattgctaactgtgggtcctttatgctgtaatattttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAG
    |||| | |     | | |   |  |    || |  ||    |||||||    | | |    ||||| | ||||  |  |||||| | ||||||||  |||||||||||||||||| ||||| ||    ||||| || ||||||||||||||||||||||| ||||| || || ||||||||||| |||
catattatctactgttatgaattgatatctcataacttatttttcatatggg----taaaactgcttgctga-tgtgcattgtttatgttctaatatttgaacagCATAAAACTATTGAGAGTGTGCTCCAAAGAGGGGAAAGATTGGATAGCTTGGTTGAGAAGAGTTCAGACCTGAGTGCTGCTTCACAG

upper sequence: GRMZM2G178244_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA09G13840.1 (Glycine max), 3'ss of exon 4
ttatgtgcatactttagtctgtgcgagcaaatctttgaatatatgggaatctgacaacaattgctaactgtgggtcctttatgctgtaatattttca--cagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAG
|| ||| |||   ||   ||   | |     |  || |   | |  |  | |        | | |   | |       | |||   |  | |||  |  ||||||||||||||||||||||| || || ||||| ||||   ||||||| || |||||||| ||||||||||| ||||| ||||| |||
ttttgttcatttctt--cctacacaattggcttgtttaggttctctggttttctggtgtgtagatttttttcaccttatgatgtctttctgtttataaacagCATAAAACTATTGATAGTGTGCTAGCTAGAGGGGAGAAGCTGGATAGTTTAGTTGAGAAGAGTTCTGATCTGAGTGCCGCTTCGCAG

upper sequence: GRMZM2G178244_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA13G19950.1 (Glycine max), 3'ss of exon 4
ttatgtgcatactttagtctgtgcgagcaaatctttgaatatatgggaatctgacaacaattgctaactgtgggtcctttatgctgtaatattttca--cagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAG
 | ||| |||   ||   |||  | |     |  || |   | |     | |        | | |  || |       | |||   |  | |||  |  ||||||||||||||||||||||| ||||| ||||| ||||   |||| || || |||||||| ||||||||||| ||||| || || |||
ctttgttcatttctt--cctgcacaataggcttgtttaggttctctagttttctggtgtgtagatctctttcaccttatgatgtctttctgtttataaacagCATAAAACTATTGATAGTGTGCTGGCTAGAGGGGAGAAGCTGGACAGTTTAGTTGAGAAGAGTTCTGATCTGAGTGCCGCATCGCAG

upper sequence: GRMZM2G178244_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv11s0206g00130.t01 (Vitis vinifera), 3'ss of exon 4
ttatgtgcatactttagtctgtgcgagcaaatctttgaatatatgggaatctgacaacaattgctaactgtgggtcctttatgctgtaatatttt-cacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAG
|   |  |   ||   ||||      |      |||     | |    || |  | |   ||  |   | |   |  | | |  | |  | |||  |||||||||| ||||||||||||||||| ||  |||| ||||   |||| || || |||||||||||||| ||||| ||  | || || |||
tggagaactatctgctgtctaattttgtttccttttttccttctttttatttttctatctttattcttt-tctttgatatgtatttttctgtttgacacagCATAAGACTATTGATAGTGTCCTTGCACGAGGTGAGAAGCTGGACAGTTTAGTTGAGAAAAGTTCAGATCTCAGCACAGCATCACAG

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:     ATAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|211043823|gb|FL450886.1|FL450886
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|4827639|gb|AI668331.1|AI668331
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|40303527|gb|CK347914.1|CK347914
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|31351801|gb|CD436158.1|CD436158
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|148986861|gb|EE030663.2|EE030663
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|211253577|gb|FL134850.1|FL134850
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGA
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGA
EST: gi|211369234|gb|FK956898.1|FK956898
EST:     ACAAACTAATGAAA-TTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|76020500|gb|DT947670.1|DT947670
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|13381899|gb|BG458574.1|BG458574
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|29947409|gb|CB816642.1|CB816642
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|211369238|gb|FK956902.1|FK956902
EST:     ACAAACTAATGAAAATTCAGAGGGACTAGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTC
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTC
EST: gi|32831700|gb|CD971378.1|CD971378
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|149005487|gb|EE040045.2|EE040045
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|60351214|gb|DN218187.1|DN218187
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|211374547|gb|FK956922.1|FK956922
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|148974489|gb|EE025272.2|EE025272
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|94478008|gb|EB706966.1|EB706966
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|211218979|gb|FL468672.1|FL468672
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|101401867|gb|EB822568.1|EB822568
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|83279031|gb|DV943039.1|DV943039
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|78109501|gb|DV527917.1|DV527917
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|78027635|gb|DV496022.1|DV496022
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|211369239|gb|FK956903.1|FK956903
EST:     ACAAACTAATGAAAATTCAGAGGGACTAGGATGAWACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAAAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|26557704|gb|CA829939.1|CA829939
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTC
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTC
EST: gi|76933701|gb|DV173556.1|DV173556
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|32829971|gb|CD969649.1|CD969649
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|32831608|gb|CD971286.1|CD971286
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|76933699|gb|DV173555.1|DV173555
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|91054889|gb|EB165307.1|EB165307
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|148974488|gb|EE025271.2|EE025271
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|211369240|gb|FK956904.1|FK956904
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|60351615|gb|DN218588.1|DN218588
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|16916951|gb|BM073059.1|BM073059
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|60397788|gb|DN230604.1|DN230604
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|60394084|gb|DN226954.1|DN226954
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|148999174|gb|EE036091.2|EE036091
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|5739969|gb|AI947659.1|AI947659
EST:     GGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: GGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|71439602|gb|DR820652.1|DR820652
EST:     ATAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|149081182|gb|EE170291.2|EE170291
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|45567196|gb|CK985452.1|CK985452
EST:     ACAAACTAATGAAAATTCAGAGTGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
EST: gi|148999175|gb|EE036092.2|EE036092
EST:     ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTT                         CATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG
genomic: ACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTG

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: 47 (upstream exon), 44 (downstream exon)
Score: 79

GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAG


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 135

GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAG


Block sizes: 49 (upstream exon), 44 (downstream exon)
Score: 200

GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 145

GACCCTGCGGAAGCTGACAAACTAATGAAAATTCAGAGGGACTTGGATGAAACAAAAATTATTCTTgtaagcgtga ... attttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaatctgacaacaattgctaactgtgggtcctttatgctgtaatattttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAG
                tgctaac  putative branch site (score: 145)
                                            tattttc  putative PPT
                                       tgtaatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttatgtgcatactttagtctgtgcgagcaaatctttgaatatatgggaatctgacaacaattgctaactgtgggtcctttatgctgtaatattttcacagCATAAAACTATTGATAGTGTCCTGGCCAGAGGAGAGAGATTGGATAGCTTGGTTGAGAAAAGTTCTGATCTAAGTGCTGCTTCTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
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- - - - - - - - - - - - gagcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - caacaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgtaa