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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttccatccacaactaccgtgctgaatctgattacatccacattccaatttccgccttatgtatattttgcttaccttctgttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATCATGACGGTTGGCCCACACTTCAAAGAGGCCAACAACTTCCTCTGGCCAT

Basic information

species Zea mays
transcript GRMZM2G178807_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G178807_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA15G18170.1 (Glycine max), 3'ss of exon 6
gtttttccatccacaactaccgtgctgaatctgattacatccacattccaatttccgccttatgta---tattttgcttaccttctgttcattatagGGCCTTGGG-AAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATCATGACGGTTGGCCCACACTTCAAAGAGGCCAACAACTTCCTCTGGCCAT
||   |     |    ||   || ||   | | |  || ||||        ||      |||  ||   | |||  || || |    |||| |    | | ||||| ||||||   ||||| ||| | || || ||  | || ||||||||||| ||||| || |||||||| ||||||||||| || || ||||| |
gtccgtgtggtctattctgtagtcctc--tgtaaacacttccattgcttgtttgttctattacttagtttttttccctgacataacattcaatgccagACTTTGGGGAAGCATGGGATCATTTGCGTTGAAGATCTGATCCATGAGATCATGACTGTTGGACCTCACTTCAAGGAGGCCAACAATTTTCTGTGGCCTT

upper sequence: GRMZM2G178807_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 5
gtttttccatccacaactaccgtgctgaatctgattacatccacattccaatttccgccttatgtatattttgcttaccttctgttc--attatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATCATGACGGTTGGCCCACACTTCAAAGAGGCCAACAACTTCCTCTGGCCAT
         |    |  |  | | ||| ||||   |   || |    | | | |  ||  ||| |   | ||||| |||| || ||   || |||||   | ||||||  |  ||| || ||||| || || ||| |||| ||||||||||| ||||| || || || || ||||||||||||||||| |||||||
--------gttttta--tgtcattctgtatcttggt-tttctatgagcgattgtttgctatatct---tgttgctaacctgcttttgtgatgatagGCTTTGGGGAAGTTTGGTATTATTTGCATGGAAGATCTTATTCATGAGATCATGACTGTTGGACCTCATTTTAAGGAGGCCAACAACTTCCTATGGCCAT

upper sequence: GRMZM2G178807_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv09s0054g00140.t01 (Vitis vinifera), 3'ss of exon 4
gtttttccatccacaactaccgtgctgaatctgattacatccacattccaatttccgccttatgtatattttgcttaccttctgttc--attatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATCATGACGGTTGGCCCACACTTCAAAGAGGCCAACAACTTCCTCTGGCCAT
         |    |  |  | | ||| ||||   |   || |    | | | |  || |||| |   | ||||| |||| || ||   || |||||   | ||||||  |  ||| || ||||| || || ||| |||| ||||||||||| ||||| || || || || ||||||||||||||||| |||||||
--------gttttta--tgtcattctgtatcttggt-tttctatgagcgattgtttgctttatct---tgttgctaacctgcttttgtgatgatagGCTTTGGGGAAGTTTGGTATTATTTGCATGGAAGATCTTATTCATGAGATCATGACTGTTGGACCTCATTTTAAGGAGGCCAACAACTTCCTATGGCCAT

upper sequence: GRMZM2G178807_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv11s0052g00290.t01 (Vitis vinifera), 3'ss of exon 6
gtttttccatccacaactaccgtgctgaatctgattacatccacattccaatttccgccttatgtatattttgcttaccttctgttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATCATGACGGTTGGCCCACACTTCAAAGAGGCCAACAACTTCCTCTGGCCAT
|||| |        || || | |    |   |   |  ||    ||   || |  |   | |   | |||||| |       |||| |||  |||   | || |||  |   ||||| ||||| || || ||  | || ||||| ||||| ||||| ||||||||||| ||||| ||||||||||| |||||||
gtttgttgtaggttaaataacatttatatgttcgatgtattgctat--aaactggcttttcaatgacattttggta------tgtt-attgcagGCTTTGGGCAAGTTTGGAATCATTTGCATTGAAGATCTCATCCATGAGATTATGACTGTTGGGCCACACTTCAAGGAGGCAAACAACTTCCTGTGGCCAT

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|22819037|gb|BU499127.1|BU499127
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|32907331|gb|CF012144.1|CF012144
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|32908208|gb|CF013021.1|CF013021
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|21809686|gb|BQ668004.1|BQ668004
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|16925138|gb|BM078206.1|BM078206
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|33467551|gb|CF244600.1|CF244600
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|148962866|gb|EE013792.2|EE013792
EST:     AGCTGAACAAGCAGAGAATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|21809687|gb|BQ668005.1|BQ668005
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGA
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGA
EST: gi|40336077|gb|CK370147.1|CK370147
EST:     GCTGAACAAGCAGAGGATTCCGCTTNAGCA-CAACAATGTCATCGAGGAG                         GGCCTTGGGAAAGCATA-TATCATCTGCATCGAGGACCTTGTTCACGAGAT
genomic: GCTGAACAAGCAGAGGATTCCGCTT-AGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAA-GCATAATATCATCTGCATCGAGGACCTTGTTCACGAGAT
EST: gi|32842374|gb|CD982055.1|CD982055
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|101391784|gb|EB817821.1|EB817821
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|5055549|gb|AI734436.1|AI734436
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|67018344|gb|CO447093.1|CO447093
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|32908209|gb|CF013022.1|CF013022
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|31405644|gb|CD484376.1|CD484376
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|22545710|gb|BU098069.1|BU098069
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|15632585|gb|BI679678.1|BI679678
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|32915527|gb|CF020339.1|CF020339
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|211036158|gb|FL345799.1|FL345799
EST:     AGCTGAMCAASCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATYTGCATCGAGGMCCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|32840388|gb|CD980069.1|CD980069
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|37381083|gb|CF627398.1|CF627398
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|148947939|gb|EC893437.2|EC893437
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|110223383|gb|EC905281.1|EC905281
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATTTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|7227861|gb|AW566502.1|AW566502
EST:     AATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCNCGAGATC
genomic: AATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|7238212|gb|AW573479.1|AW573479
EST:     GAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: GAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|113702123|gb|EE679627.1|EE679627
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|67023746|gb|CO452495.1|CO452495
EST:     AGCTGA-CAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATA-TATCATTTGCATCGAG-ACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|31910667|gb|CD651539.1|CD651539
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|45847255|gb|CN071198.1|CN071198
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAGCAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|91872513|gb|EB402470.1|EB402470
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATTTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|33467550|gb|CF244599.1|CF244599
EST:     TGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GCCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: TGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|211438494|gb|FL357614.1|FL357614
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCAT
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCAT
EST: gi|60354171|gb|DN221144.1|DN221144
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|5058614|gb|AI737090.1|AI737090
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|5566791|gb|AI881657.1|AI881657
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|31405645|gb|CD484377.1|CD484377
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|60350549|gb|DN217522.1|DN217522
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|50328294|gb|CO523420.1|CO523420
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|32841631|gb|CD981312.1|CD981312
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|14717708|gb|BI245358.1|BI245358
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|78023627|gb|DV492014.1|DV492014
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATTTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|32841234|gb|CD980915.1|CD980915
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|78081765|gb|DV510177.1|DV510177
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|110492395|gb|EE013791.1|EE013791
EST:     AGCTGAACAAGCAGAGAATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATTTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|18177731|gb|BM378941.1|BM378941
EST:     GCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: GCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|148959152|gb|EE010619.2|EE010619
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|15660843|gb|BI698214.1|BI698214
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC
EST: gi|211386266|gb|FL454544.1|FL454544
EST:     AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAG                         GGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCATGAGATC
genomic: AGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATC

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), 48 (downstream exon)
Score: 191

CCCGAACCTGAAGAGTGTTAGGGAATTGATCTACAAAAGAGGTTATGGGAAGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATCATGACGGTTGGCCCACACTTCAAAGAGGCCAACAACTTCCTCTGGCCAT


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 101

CCCGAACCTGAAGAGTGTTAGGGAATTGATCTACAAAAGAGGTTATGGGAAGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATCATGACGGTTGGCCCACACTTCAAAGAGGCCAACAACTTCCTCTGGCCAT


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 138

CCCGAACCTGAAGAGTGTTAGGGAATTGATCTACAAAAGAGGTTATGGGAAGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATCATGACGGTTGGCCCACACTTCAAAGAGGCCAACAACTTCCTCTGGCCAT


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 70

CCCGAACCTGAAGAGTGTTAGGGAATTGATCTACAAAAGAGGTTATGGGAAGCTGAACAAGCAGAGGATTCCGCTTAGCAACAACAATGTCATCGAGGAGgtttttccat ... ttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATCATGACGGTTGGCCCACACTTCAAAGAGGCCAACAACTTCCTCTGGCCAT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccacattccaatttccgccttatgtatattttgcttaccttctgttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATCATGACGGTTGGCCCACACTTCAAAGAGGCCAACAACTTCCTCTGGCCAT
                                tgcttac  putative branch site (score: 70)
                                  cttaccttctgttc  CT-rich tract
                    ttatgtatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttttccatccacaactaccgtgctgaatctgattacatccacattccaatttccgccttatgtatattttgcttaccttctgttcattatagGGCCTTGGGAAGCATAATATCATCTGCATCGAGGACCTTGTTCACGAGATCATGACGGTTGGCCCACACTTCAAAGAGGCCAACAACTTCCTCTGGCCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG