Skip to another splice site:
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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGAACATGCTCAAGCCGCGGCCGACGCCGCAGCAGCAGCTGCGCGAGTGGCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccccgaacgcgcccgcatctccttcccttctcgtcccccacatctccttcccctggtctccaagggaactggcgatcgggctcgtgtggacgg...

Basic information

species Zea mays
transcript GRMZM2G165195_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G165195_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os07g29630.1 (Oryza sativa), 5'ss of exon 1
AAGAACATGCTCAAGCCGCGGCCGACGCCGCAGCAGCAGCTGCGCGAGTGGCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccccgaacgcgcccgcatctccttcccttctcgtcccccacatctccttcccctggtctccaagggaactggcgatcgggctcgtgtggacgg
|||    |||| |||||||||||||||||||||||||||||||| ||||||||||||   ||||||||||||||||||||||||||||| |||||||||||| |   |||| | | |  || | || ||   |   |    |  ||    | |     | | ||||    | |  ||         | ||| | ||  ||
AAGGGTCTGCTGAAGCCGCGGCCGACGCCGCAGCAGCAGCTGCGGGAGTGGCAGCGCAAGCTCCGCAACGAGTGCCGCGTCCTCGACCGCCAGATCCGAGgttcgctcccccatctcctcctcctcccccgacgcgcgacccgaccttcacgcgaggtctttgtctaggtgtgttctcttccatatgatcgggggggggg

upper sequence: GRMZM2G165195_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ14961 (Selaginella moellendorffii), 5'ss of exon 1
AAGAACATGCTCAAGCCGCGGCCGACGCCGCAGCAGCAGCTGCGCGAGTGGCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccccgaacgcgcccgcatctccttcccttctcgtcccccacatctccttcccctggtctccaagggaactggcgatcgggctcgtgtggacgg
|||  | || |||||||  |||||||||||||| |||||||||||||||||||||||||||||||| | ||    |||  | | || || ||| || | ||| | | |||            | ||| ||    || |  |||||| ||| || | |  |   |  |  |      ||   ||  || |  |        
AAGGGCGTGTTCAAGCCCAGGCCGACGCCGCAGGAGCAGCTGCGCGAGTGGCAGCGCCGCCTCCGCCAGGAAGCTCGCAACGTTGAACGCCAGGTCAGGGgtacgatccct-----------cgtcttctagggtttt--tcccccgcat-tcttgctgcgattggctgaattgcgtgagaatttggtttctag------

upper sequence: GRMZM2G165195_T01 (Zea mays), 5'ss of exon 1
lower sequence: EFJ38261 (Selaginella moellendorffii), 5'ss of exon 1
AAGAACATGCTCAAGCCGCGGCCGACGCCGCAGCAGCAGCTGCGCGAGTGGCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccccgaacgcgcccgcatctccttcccttctcgtcccccacatctccttcccctggtctccaagggaactggcgatcgggctcgtgtggacgg
|||  | || |||||||  |||||||||| ||| |||||||||||||||||||||||||||||||| | ||    |||  | | || || ||| || | ||| | | |||            | ||| ||    || |  |||||| ||| || | |  |   |  |  |      ||   ||  || |           
AAGGGCGTGTTCAAGCCCAGGCCGACGCCACAGGAGCAGCTGCGCGAGTGGCAGCGCCGCCTCCGCCAGGAAGCTCGCAACGTTGAACGCCAGGTCAGGGgtacgatccct-----------cgtcttctagggtttt--tcccccgcat-tcttgctgcgattggctgaattgcgtgagaatttggtttccag------

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|211490966|gb|FL175568.1|FL175568
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|91052905|gb|EB163323.1|EB163323
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211496741|gb|FL175598.1|FL175598
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211496733|gb|FL175590.1|FL175590
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211496739|gb|FL175596.1|FL175596
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211496731|gb|FL175588.1|FL175588
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|91054729|gb|EB165147.1|EB165147
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211499618|gb|FL175604.1|FL175604
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|148991100|gb|EE032548.2|EE032548
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211496735|gb|FL175592.1|FL175592
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211512472|gb|FL332432.1|FL332432
EST:     CCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: CCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211499621|gb|FL175607.1|FL175607
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211493851|gb|FL175583.1|FL175583
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211496742|gb|FL175599.1|FL175599
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|71765372|gb|DR963309.1|DR963309
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211490965|gb|FL175567.1|FL175567
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211496734|gb|FL175591.1|FL175591
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|21331789|gb|BQ487170.1|BQ487170
EST:     GCAGTGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211496737|gb|FL175594.1|FL175594
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211493849|gb|FL175581.1|FL175581
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211493848|gb|FL175580.1|FL175580
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCCTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGA-AAATCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211499622|gb|FL175608.1|FL175608
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211493850|gb|FL175582.1|FL175582
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211493840|gb|FL175572.1|FL175572
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211499614|gb|FL175600.1|FL175600
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211493845|gb|FL175577.1|FL175577
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211493842|gb|FL175574.1|FL175574
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211490962|gb|FL175564.1|FL175564
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATKTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211499616|gb|FL175602.1|FL175602
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211499626|gb|FL175612.1|FL175612
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|76010551|gb|DT937721.1|DT937721
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211493841|gb|FL175573.1|FL175573
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211493852|gb|FL175584.1|FL175584
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211499615|gb|FL175601.1|FL175601
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211493843|gb|FL175575.1|FL175575
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211496730|gb|FL175587.1|FL175587
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
EST: gi|211493847|gb|FL175579.1|FL175579
EST:     GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCA

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), 49 (downstream exon)
Score: 262

AAGAACATGCTCAAGCCGCGGCCGACGCCGCAGCAGCAGCTGCGCGAGTGGCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCAAGCGCAATGACATGGGATCTGCAAAG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 263

AAGAACATGCTCAAGCCGCGGCCGACGCCGCAGCAGCAGCTGCGCGAGTGGCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCAAGCGCAATGACATGGGATCTGCAAAG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 229

AAGAACATGCTCAAGCCGCGGCCGACGCCGCAGCAGCAGCTGCGCGAGTGGCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCAAGCGCAATGACATGGGATCTGCAAAG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 274

AAGAACATGCTCAAGCCGCGGCCGACGCCGCAGCAGCAGCTGCGCGAGTGGCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccc ... gtttttgcagATGTGCAGAGGGAGGAGAAGAACGTGGAGAAAGCCATCAGGGAGGCTGCCAAGCGCAATGACATGGGATCTGCAAAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAGAACATGCTCAAGCCGCGGCCGACGCCGCAGCAGCAGCTGCGCGAGTGGCAGCGCCGCCTCCGCAACGAGTGCCGCGTCCTCGACCGTCAGATCCGAGgtcctacccccgaacgcgcccgcatctccttcccttctcgtcccccacatctccttcccctggtctccaagggaactggcgatcgggctcgtgtggacgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccccga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cgcccgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttcccc