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

gtagctttagtcttttaaacccccctcctttttctgagtgtatttctatgtgaaatcatatgatagttactgtaaagtataatattgtgaacatggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCAAAGGAGTCACAGCCCTACAAGGAGATCCCATCCTTGCAGCTCATCAACC

Basic information

species Zea mays
transcript GRMZM2G073077_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G073077_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g25420.1 (Oryza sativa), 3'ss of exon 5
gtagctttagtcttttaaacccccctcctttttctgagtgtatttctatgtgaaatcatatgatagttactgtaaagtataatattgtgaacatggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCAAAGGAGTCACAGCCCTACAAGGAGATCCCATCCTTGCAGCTCATCAACC
            |  |    |  |||||  | | |   |||   |||  || || | | ||||||   ||  |  | | |||| | |||        | |||||||||||| ||||||||| | ||| | ||| ||||||||||||||||||| |||||| | ||||||| ||||||||| ||||| |||||| | |||||||
-----------gtaattgctcttcctcccctctatttatgtgcctct-cgtcaatttacatgatataaaccctgtatt-taatgtggtg--------ttacagGAGCACCCTGAATGGGAGGTAAAGGATGGTTCCGTCTTCTTCCAGAAGGCGAAGGAGACCCAGCCCTGCAAGGAGATACCATCTTTGCAGGTTATCAACC
















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|5055559|gb|AI734446.1|AI734446
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|32845250|gb|CD984931.1|CD984931
EST:     ACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: ACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|22490601|gb|BU050524.1|BU050524
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|32844004|gb|CD983685.1|CD983685
EST:     ACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: ACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|74240003|gb|DT647917.1|DT647917
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCCGGAATGGGAGCTTAAGAACGGTGCCCGTCCTCTTCCAGAA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCC-GGAATGGGAGCTTAAGAACGGTGCC-GTCTTCTTCCAGAA
EST: gi|12970972|gb|BG267250.1|BG267250
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|71428537|gb|DR809587.1|DR809587
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTNAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|211365708|gb|FL031157.1|FL031157
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|18654920|gb|BM499725.1|BM499725
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGCGCCG
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCG
EST: gi|71442771|gb|DR823821.1|DR823821
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|74240002|gb|DT647916.1|DT647916
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCAGGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|87152277|gb|DY397066.1|DY397066
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|19769759|gb|BQ034480.1|BQ034480
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|76013186|gb|DT940356.1|DT940356
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|30306671|gb|CD001344.1|CD001344
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|5006235|gb|AI712297.1|AI712297
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|19058306|gb|BM736973.1|BM736973
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|8930284|gb|BE225048.1|BE225048
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|110210675|gb|EC892572.1|EC892572
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|28982970|gb|BQ538420.2|BQ538420
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|60353681|gb|DN220654.1|DN220654
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|16920046|gb|BM074472.1|BM074472
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|21331201|gb|BQ486582.1|BQ486582
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCGCGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|76013187|gb|DT940357.1|DT940357
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|211123288|gb|FL412657.1|FL412657
EST:     AATGCTTAATGT-CAGTTCTGACCCAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAG
genomic: AATGCTTA-TGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAG
EST: gi|19822102|gb|BQ048126.1|BQ048126
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|60343651|gb|DN210624.1|DN210624
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|7135363|gb|AW498048.1|AW498048
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|7137690|gb|AW499221.1|AW499221
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|32857529|gb|CD997210.1|CD997210
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|71331372|gb|DR802521.1|DR802521
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTANGAACGGTGCCGTCT
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCT
EST: gi|60396436|gb|DN229305.1|DN229305
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|148947219|gb|EC892573.2|EC892573
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|211193238|gb|FL445829.1|FL445829
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|60358231|gb|DN225204.1|DN225204
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|56382240|gb|CV984909.1|CV984909
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAAAG                         GAGCACCCGGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTC
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGG-AATGGGAGCTTAAGAACGGTGCCGTCTTCTTC
EST: gi|50327367|gb|CO522493.1|CO522493
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACG
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACG
EST: gi|21088919|gb|BQ401232.1|BQ401232
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|6827668|gb|AW331311.1|AW331311
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGTTTAAGAATGGCGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|78027317|gb|DV495704.1|DV495704
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|19769355|gb|BQ034076.1|BQ034076
EST:     GAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
EST: gi|17931684|gb|BM268644.1|BM268644
EST:     AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAG                         GAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA
genomic: AAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCA

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), 38 (downstream exon)
Score: 133

TGGGTGCAGCGAAAAGGGGTATGATTCCCTATCTGTAAGTGATGCAAAACAAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCAAAGGAGTCACAGCCCTACAAGGAGATCCCATCCTTGCAGCTCATCAACC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 174

TGGGTGCAGCGAAAAGGGGTATGATTCCCTATCTGTAAGTGATGCAAAACAAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCAAAGGAGTCACAGCCCTACAAGGAGATCCCATCCTTGCAGCTCATCAACC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 176

TGGGTGCAGCGAAAAGGGGTATGATTCCCTATCTGTAAGTGATGCAAAACAAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCAAAGGAGTCACAGCCCTACAAGGAGATCCCATCCTTGCAGCTCATCAACC


Block sizes: 49 (upstream exon), 34 (downstream exon)
Score: 120

TGGGTGCAGCGAAAAGGGGTATGATTCCCTATCTGTAAGTGATGCAAAACAAATGCTTATGTTCAGTTCTGACCAAGATCTGCACGAGTACATCACAGAGgtagctttag ... tggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCAAAGGAGTCACAGCCCTACAAGGAGATCCCATCCTTGCAGCTCATCAACC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgaaatcatatgatagttactgtaaagtataatattgtgaacatggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCAAAGGAGTCACAGCCCTACAAGGAGATCCCATCCTTGCAGCTCATCAACC
                      tgtaaagtataatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagctttagtcttttaaacccccctcctttttctgagtgtatttctatgtgaaatcatatgatagttactgtaaagtataatattgtgaacatggttaacagGAGCACCCGGAATGGGAGCTTAAGAACGGTGCCGTCTTCTTCCAGAAGGCAAAGGAGTCACAGCCCTACAAGGAGATCCCATCCTTGCAGCTCATCAACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA