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

...tgtcacttcgtcagcagtgtttgtcttagaatgaatgaaatattacttagaatagttcgtagaacgaataagataactaagagtatgttcctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAAGATAAAAAGCATAGGCATCGAGTTGATTCCACTGGAGACGAGCGTCAAG

Basic information

species Zea mays
transcript GRMZM2G179981_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179981_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g34480.1 (Oryza sativa), 3'ss of exon 5
tgtcacttcgtcagcagtgtttgtcttagaatgaatgaaatattacttagaatagttcgtagaacgaataagataactaa-gagt-atgttcctcttg--gcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAAGATAAAAAGCATAGGCATCGAGTTGATTCCACTGGAGACGAGCGTCAAG
     | | |||     |||  | |     |||||| || || ||||   | |  ||         |      | || |  |||| ||  || | ||    ||||||||||||||||||||| |  || |||  |||||| ||||||||||| |||||||||||| | ||| | ||  ||| ||| ||| | |||||| |||||
----tcattgtccatcttgtcagccagtttatgaataaactactactactagtgcttaacctgctcatcgcagtgaccagtgagtgataatcgtttttctacagGTGTGCAGATGACAAGCCATCAGTGCCAATCTACCAGGTATCAAAGGAAAAGATAAAAAGCTTGGGCCTGGAACTGACTCCCCTGCACACGAGCATCAAG
















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|6828098|gb|AW331741.1|AW331741
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|60356125|gb|DN223098.1|DN223098
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|149026876|gb|EE046227.2|EE046227
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTTTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTNNNNNNNTCCCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|60353639|gb|DN220612.1|DN220612
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|60397191|gb|DN230007.1|DN230007
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|91874257|gb|EB404214.1|EB404214
EST:     CTGGTGAACATTATCCGCAACATGTATCTTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTCCCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|13149529|gb|BG319851.1|BG319851
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|211348066|gb|FL030223.1|FL030223
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|33096198|gb|CF056192.1|CF056192
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|60337657|gb|DN204630.1|DN204630
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|18181228|gb|BM382438.1|BM382438
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|37382039|gb|CF627939.1|CF627939
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|148958396|gb|EC904627.2|EC904627
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTNNNNNNNTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|74035195|gb|DT535685.1|DT535685
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|19769689|gb|BQ034410.1|BQ034410
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|5871355|gb|AW017826.1|AW017826
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|78544880|gb|DV622378.1|DV622378
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|6526921|gb|AW216172.1|AW216172
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCGAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|18179351|gb|BM380561.1|BM380561
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|113703744|gb|EE681248.1|EE681248
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|116820851|gb|EC864113.1|EC864113
EST:     CTGGTGAACATTGTCCGCAACATGTATCCTACCCTTCCTCTTGCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|60348833|gb|DN215806.1|DN215806
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|211532395|gb|FL468972.1|FL468972
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|113701585|gb|EE679089.1|EE679089
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|32834951|gb|CD974629.1|CD974629
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|5152735|gb|AI759033.1|AI759033
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|116815402|gb|EC858082.1|EC858082
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|5922259|gb|AW055548.1|AW055548
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|60338608|gb|DN205581.1|DN205581
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|32941690|gb|CF046509.1|CF046509
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGTAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|32833364|gb|CD973042.1|CD973042
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|71765986|gb|DR963923.1|DR963923
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|211348063|gb|FL030220.1|FL030220
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|4647738|gb|AI622813.1|AI622813
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|60349506|gb|DN216479.1|DN216479
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|60397818|gb|DN230634.1|DN230634
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|18177966|gb|BM379176.1|BM379176
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|71770067|gb|DR968004.1|DR968004
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCTTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTCCCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|37391594|gb|CF633041.1|CF633041
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|6227063|gb|AW155767.1|AW155767
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|22819316|gb|BU499406.1|BU499406
EST:     ATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: ATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
EST: gi|32942144|gb|CF046963.1|CF046963
EST:     CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGATAA                         GTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA
genomic: CTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAA

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: 146

CATCAAATGGAAGGTACTGCATGGTGGAAAGAGTTGTTCACTACTCAGAACTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAAGATAAAAAGCATAGGCATCGAGTTGATTCCACTGGAGACGAGCGTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 511

CATCAAATGGAAGGTACTGCATGGTGGAAAGAGTTGTTCACTACTCAGAACTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAAGATAAAAAGCATAGGCATCGAGTTGATTCCACTGGAGACGAGCGTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 657

CATCAAATGGAAGGTACTGCATGGTGGAAAGAGTTGTTCACTACTCAGAACTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAAGATAAAAAGCATAGGCATCGAGTTGATTCCACTGGAGACGAGCGTCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 235

CATCAAATGGAAGGTACTGCATGGTGGAAAGAGTTGTTCACTACTCAGAACTGGTGAACATTATCCGCAACATGTATCCTACCCTTCCTCTTCCGGACAAgtaagttcat ... ctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAAGATAAAAAGCATAGGCATCGAGTTGATTCCACTGGAGACGAGCGTCAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttagaatagttcgtagaacgaataagataactaagagtatgttcctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAAGATAAAAAGCATAGGCATCGAGTTGATTCCACTGGAGACGAGCGTCAAG
                         agataac  putative branch site (score: 235)
                                        tgttcctctt  putative PPT
                     aataagataactaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtcacttcgtcagcagtgtttgtcttagaatgaatgaaatattacttagaatagttcgtagaacgaataagataactaagagtatgttcctcttggcagGTGTGCAGATGACAAGCCGTTTGTCCCACCCTACCAAGTATCAAAGGAGAAGATAAAAAGCATAGGCATCGAGTTGATTCCACTGGAGACGAGCGTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - tcagcag
- - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - atgaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaacgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagataac