Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcgcagttgccgaattctcccctcctctacacacgggctgttgccttcgtttcggcagcttaggattttgggtccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC

Basic information

species Zea mays
transcript GRMZM2G092975_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G092975_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g43570.1 (Oryza sativa), 3'ss of exon 3
gtgagtcgcagttgccgaattctcccctcctctacacacgg----gctgttgccttcgtttcggcagcttaggattttgggtccctc-----tgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC
||||||||| |   | || || |||||||||||     |      | | | || | || || || ||  |  |  ||| ||||  ||     ||||||||||||||  ||||||||||||||||||||||||| ||||||||||||||||||||||||||| ||||||| |||||||| ||||| || |||||||||
gtgagtcgccgcgccagatttgtcccctcctctttgtgcttttttggtttagcatccggtttgggagaattagggtttcggtcggtcggtggtgcagGTACCAGCGCCTGGTGTTCAGGCACAAGCTGTATCAACTGCGGGAGGAGAGGGACATGAAGCCCCAGACCTTCGCCAGCCTCGTCTCCGCTCTCCTCTAC

upper sequence: GRMZM2G092975_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA14G24270.2 (Glycine max), 3'ss of exon 1
gtgagtcgcagttgccgaattctcccctcctctacacacgggctgttgccttcgtttcggcagcttaggattttgggtccctctgc-----------agGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC
||  || | |  | ||   ||||    || |||   |      | || ||    |||       ||    |||||  |  || ||            ||||| |||||  | || ||| ||||||| ||||| |||||||| || |||||||| ||||| || ||||||||||||||  | |||||||| || ||||| 
gtatgtagta-ctacccttttctattttcttcttttcttttcttttttccccaattttttttaattgtttttttgtttttctttgtttacttttttaagGTATCAGCGTCTTGTTTTCCGGCACAAACTGTACCAGCTGCGTGAAGAGAGGGATATGAAACCAGAGACCTTTGCCAGTTTAGTCTCTGCTCTGCTCTAT

upper sequence: GRMZM2G092975_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G10130.1 (Glycine max), 3'ss of exon 1
----------------gtgagtcgcagttgccgaattctcccctcctctacac--acgggctgttgccttcgtttcggcagcttaggattt--tgggtccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC
                 | | ||    |       || |  | |  |||      ||    | ||   ||  ||| |    ||     |||  |   |   | |  ||||| |||||  | || ||| ||||||| ||||||||||| || || |||||||| ||||| || ||||||||||||||| | |||||||| || || || 
gtatgtagcgctaccctttactctttttcttttgtttttttctttttctttttctaccattttttaaattgtttttgttctctctttgtttacttttttttttttaagGTATCAGCGTCTTGTTTTCCGGCACAAACTGTATCAGCTTCGTGAAGAGAGGGATATGAAACCAGAGACCTTTGCCAGCTTAGTCTCTGCTCTGCTTTAT

upper sequence: GRMZM2G092975_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv18s0001g02260.t01 (Vitis vinifera), 3'ss of exon 2
--gtgagtcg-cagttgccgaattctcccctcctctacacacgggctgttgccttcgtttcggcagctt--aggattttgggtccc--tctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC
   ||| ||  |  ||||   || | ||   |||  |       | | |||  ||  ||  ||    ||  |  | |||   |     | || || || || ||| | || ||  ||||||| ||||||||||| || ||||||||||| ||||||||||| |||||||| |||||||| ||||| || || || 
gtatgaatcatcgattgctctat-cgccttgccttcatttttttgtt-ttgttttatttctggattttttaaaaaatttaaattttgatgtgtagATATCAACGGCTTGTTTTTCGGCACAAACTGTATCAGCTTCGAGAGGAGAGGGATATGAAGCCCGAAACCTTTGCAAGCCTTGTATCTGCTCTTCTTTAT

upper sequence: GRMZM2G092975_T01 (Zea mays), 3'ss of exon 2
lower sequence: EDP08231 (Chlamydomonas reinhardtii), 3'ss of exon 2
gtgagtcgcagttgccgaattctcccctcctctacacacgggctgttgccttcgtttcggcagcttaggattttgggtccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC---------------------
      ||  |  ||   |  ||||| | || | | ||    |      || |       |  | |       ||   ||  |      | ||  |  |  |   |||||||||| |||||  |||||||||||||| | ||||||||||||   ||||| | |  | |  ||||      ||| |||                     
----aacgtcgccgcgccaagctccctttctttccccaacaaccaccctctcctccctccctccctccctccctgccccctccc-----ttccttccctccgccctcagGCACAACCTGTACAAGCTGCGGGAGGAGCGCGACATGAAGCCCTCCACCTTCGGCCACATGCTCTCCAACGCCCTGTACGAGCGCCGCTTCGGGCCCTAC

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|37377268|gb|CF625223.1|CF625223
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTCCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|37378530|gb|CF625957.1|CF625957
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|47962777|gb|CN845486.1|CN845486
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|211069213|gb|FL305343.1|FL305343
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCRCTGACGCCCAGACGCT                         GTACCAGSGGTKGGKGTTCAGGCWCAAGCTGTATCASCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|4887391|gb|AI677490.1|AI677490
EST:     TTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: TTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|211071940|gb|FL305347.1|FL305347
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|211071943|gb|FL305350.1|FL305350
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|113703164|gb|EE680668.1|EE680668
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|211071946|gb|FL305353.1|FL305353
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAN
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|50328692|gb|CO523818.1|CO523818
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|71329112|gb|DR801265.1|DR801265
EST:     GACAAGCTTTTCATCGGCCTCTTTGGGCTCGCCCCTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|67017133|gb|CO445882.1|CO445882
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|148965852|gb|EE016749.2|EE016749
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|78180178|gb|DV550551.1|DV550551
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|148965851|gb|EE016748.2|EE016748
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|71329114|gb|DR801266.1|DR801266
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|71759696|gb|DR957633.1|DR957633
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|6827536|gb|AW331179.1|AW331179
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGGGTTCAGGCACAAGCTGGATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|211069214|gb|FL305344.1|FL305344
EST:     GACAAGTTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGTTGTATCARCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|113701140|gb|EE678644.1|EE678644
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|67016388|gb|CO445137.1|CO445137
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|67022320|gb|CO451069.1|CO451069
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|67041562|gb|CO467817.1|CO467817
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|91877573|gb|EB407530.1|EB407530
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|50323661|gb|CO518787.1|CO518787
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|67028880|gb|CO457629.1|CO457629
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|37380700|gb|CF627177.1|CF627177
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|211071942|gb|FL305349.1|FL305349
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|71438822|gb|DR819872.1|DR819872
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|76909375|gb|DV163351.1|DV163351
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|12046147|gb|BF728286.1|BF728286
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|71303012|gb|DR787617.1|DR787617
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|148973855|gb|EE024997.2|EE024997
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|37393439|gb|CF633984.1|CF633984
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|40336492|gb|CK370562.1|CK370562
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|78107042|gb|DV525460.1|DV525460
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|211071941|gb|FL305348.1|FL305348
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|148973856|gb|EE024998.2|EE024998
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|211071944|gb|FL305351.1|FL305351
EST:     GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
EST: gi|116823354|gb|EC866875.1|EC866875
EST:     GACAAGCTTTACATC-GCCTCTCTGGGCTCGCCACTGACGCCCAGACGCT                         GTACCAACGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG
genomic: GACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAG

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: 246

TGCAGCTTCAGACCATCGCGACGGACTTCCAGCGGGTGTTCAAGGTCCACGACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 262

TGCAGCTTCAGACCATCGCGACGGACTTCCAGCGGGTGTTCAAGGTCCACGACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 197

TGCAGCTTCAGACCATCGCGACGGACTTCCAGCGGGTGTTCAAGGTCCACGACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 189

TGCAGCTTCAGACCATCGCGACGGACTTCCAGCGGGTGTTCAAGGTCCACGACAAGCTTTACATCGGCCTCTCTGGGCTCGCCACTGACGCCCAGACGCTgtgagtcgca ... ccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acacacgggctgttgccttcgtttcggcagcttaggattttgggtccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC
                                            tccctctgc  CT-rich tract
                                    atttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtcgcagttgccgaattctcccctcctctacacacgggctgttgccttcgtttcggcagcttaggattttgggtccctctgcagGTACCAGCGGTTGGTGTTCAGGCACAAGCTGTATCAGCTGCGGGAGGAGAGGGACATGAAGCCCGAGACCTTTGCCAGCCTTGTCTCTGCGCTCCTCTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC