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

...attgacaatgtggtgcttatcttgtgtagctattaccgccacccttagcattacatgtgattttacctttctccataaaaaaaacaattctttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTGAAGGTGCGAGCTGGATTCTACCGCAACTTCCTCCTTCCCAAGGGCAAGG

Basic information

species Zea mays
transcript GRMZM2G096962_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G096962_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g57670.1 (Oryza sativa), 3'ss of exon 1
attgacaatgtggtgcttatcttgtgtagctattaccgccacccttagcattacatgtgattttaccttt---ctccataaaaaaaacaattctttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTGAAGGTGCGAGCTGGATTCTACCGCAACTTCCTCCTTCCCAAGGGCAAGG
  || ||   |  | ||| |||  | |    ||| |              | |     ||||     |||    | | | |    |     | |||| |  |||||||| ||||||| ||||||| ||||||||||||||||||||| || || || ||| | || || ||||||||||||||||| || || ||||||||||
-atgtcatcatcttccttgtctattatg--catttctatactttagcatgtaatgcacgattccgtatttgatttacttcacttgagtttctttttctcccagGTCATACTGACAGATGACATAGCAGAGGTGGGGAAGAAAGGGGACACGCTTAAAGTGAGGGCCGGGTTCTACCGCAACTTCCTTCTGCCAAAGGGCAAGG
















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|13178137|gb|BG349395.1|BG349395
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|13490830|gb|BG517594.1|BG517594
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         NNNNNNNNGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211322847|gb|FL127468.1|FL127468
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTKGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087730|gb|FL054352.1|FL054352
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|14645994|gb|BI180183.1|BI180183
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGTTACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|13316131|gb|BG410578.1|BG410578
EST:     AGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: AGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211090167|gb|FL054356.1|FL054356
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGANGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087722|gb|FL054344.1|FL054344
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211518614|gb|FL054337.1|FL054337
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|15198812|gb|BI423499.1|BI423499
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|32860092|gb|CD999773.1|CD999773
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATA-AAGAGGTGGGGGAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087731|gb|FL054353.1|FL054353
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211322849|gb|FL127470.1|FL127470
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|148974517|gb|EE025302.2|EE025302
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087725|gb|FL054347.1|FL054347
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|149089632|gb|EE178886.2|EE178886
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087723|gb|FL054345.1|FL054345
EST:     TCCGTTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: TCCGT-CGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087721|gb|FL054343.1|FL054343
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|31355725|gb|CD440082.1|CD440082
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211090166|gb|FL054355.1|FL054355
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087718|gb|FL054340.1|FL054340
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211090165|gb|FL054354.1|FL054354
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|15208882|gb|BI430766.1|BI430766
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|149010029|gb|EE041834.2|EE041834
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|32858543|gb|CD998224.1|CD998224
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGGAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|148985808|gb|EE029766.2|EE029766
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087728|gb|FL054350.1|FL054350
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|13178451|gb|BG349709.1|BG349709
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087719|gb|FL054341.1|FL054341
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211322848|gb|FL127469.1|FL127469
EST:     TCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGGTCA-GAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAAGGGGATACACT
genomic: TCCGTCGCTGGTCATCGTCGCCCAGGGGAAGG-TCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAA-GGGGATACACT
EST: gi|13516046|gb|BG518322.1|BG518322
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGTTCTTTTTACATAGAAGAGGTGGGGAAGAAAGGGGATACACT
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTG-ACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACT
EST: gi|211518613|gb|FL054336.1|FL054336
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|2615445|gb|AA661454.1|AA661454
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087717|gb|FL054339.1|FL054339
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|15053619|gb|BI359164.1|BI359164
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087726|gb|FL054348.1|FL054348
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|148967374|gb|EE018593.2|EE018593
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087727|gb|FL054349.1|FL054349
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|5761970|gb|AI967018.1|AI967018
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211322850|gb|FL127471.1|FL127471
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211090169|gb|FL054358.1|FL054358
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087729|gb|FL054351.1|FL054351
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211518615|gb|FL054338.1|FL054338
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
EST: gi|211087724|gb|FL054346.1|FL054346
EST:     CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAG                         GTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG
genomic: CTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTG

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: 36 (upstream exon), 43 (downstream exon)
Score: 3

CTCCTACCCGCGGCCCTCGGCGGGGCGCTGCCTCACGGCCTCTCGCCGGGCTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTGAAGGTGCGAGCTGGATTCTACCGCAACTTCCTCCTTCCCAAGGGCAAGG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 58

CTCCTACCCGCGGCCCTCGGCGGGGCGCTGCCTCACGGCCTCTCGCCGGGCTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTGAAGGTGCGAGCTGGATTCTACCGCAACTTCCTCCTTCCCAAGGGCAAGG


Block sizes: 45 (upstream exon), 30 (downstream exon)
Score: 7

CTCCTACCCGCGGCCCTCGGCGGGGCGCTGCCTCACGGCCTCTCGCCGGGCTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTGAAGGTGCGAGCTGGATTCTACCGCAACTTCCTCCTTCCCAAGGGCAAGG


Block sizes: 36 (upstream exon), 45 (downstream exon)
Score: 9

CTCCTACCCGCGGCCCTCGGCGGGGCGCTGCCTCACGGCCTCTCGCCGGGCTCCGTCGCTGGTCATCGTCGCCCAGGGGAAGGTCAAGAAGTACCGCCAGgtcggcccgg ... tttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTGAAGGTGCGAGCTGGATTCTACCGCAACTTCCTCCTTCCCAAGGGCAAGG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagcattacatgtgattttacctttctccataaaaaaaacaattctttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTGAAGGTGCGAGCTGGATTCTACCGCAACTTCCTCCTTCCCAAGGGCAAGG
                                          ttctttcccat  CT-rich tract
                             ataaaaaaaacaattc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attgacaatgtggtgcttatcttgtgtagctattaccgccacccttagcattacatgtgattttacctttctccataaaaaaaacaattctttcccatagGTCATATTGACAGACGACATAGAAGAGGTGGGGAAGAAAGGGGATACACTGAAGGTGCGAGCTGGATTCTACCGCAACTTCCTCCTTCCCAAGGGCAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA