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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgttctttgctccgtaaaatgaggaggagaagtaagatcacttgctttgctcacagatactgagatacaagatgttgactctggtcatatcca...

Basic information

species Zea mays
transcript GRMZM2G010596_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G010596_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os01g12560.1 (Oryza sativa), 5'ss of exon 3
TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgttctttgctccgtaaaatgaggaggagaagtaagatcacttgctttgctcacagatactgagatacaagatgttgactctggtcatatcca-
|||||||||||||||||| ||||| |||||||| |||||||||||||||||| |||||||||||||||| ||||| |||||||||||||| ||||| |||||||  || |||  |   |   | | |    |     |   | || |  | | ||   | ||     | ||||  |    ||||  |||  ||  || |  
TGTGTTGGAGTGTGTGCCAGCTCCTGTGGCAGCTGCTGCAACATCAGCATTGCAAATCCCAACCATTGGAATTGGTGCTGGACCATTCTGCAGTGGACAGgttcagttattcagtatacttcacagttcacacttctacagatat-atgttcattttcctcaacagtttagattaagccagttgtatctattctgattctt

upper sequence: GRMZM2G010596_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT3G61530.1 (Arabidopsis thaliana), 5'ss of exon 3
TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgttt-gttctttgctccgtaaaatgaggaggagaagtaagatcacttgctttgctcacagatactgagatacaagatgttgactctggtcatatcca-------------------------------------------------------------------------------------------------------
||| || || ||||| ||  |||| ||||| || |||||||| || ||  | || || |||||||||||||| || ||||| || ||||| ||||| ||||||||||| | |  |   | | |    | |    ||| | || |    |||  || | |  ||  | || | | |     || |         ||||| |                                                                                                        
TGTTTTAGAATGTGTTCCACCTCCTGTGGCTGCTGCTGCAACCTCTGCTCTTAATATTCCAACCATTGGCATAGGAGCTGGCCCTTTCTGCAGTGGTCAGgttcgttttgatactctttacattgtcttaacgagagcaatagg----cttctttcggtttcatgtgcttatacatggtttgattgaataaaccatattctcagttattggcctttttgcatgattaaagagtaagatcagcacaaaaagagtgagttatctacatttctgatcaagtatgtcacatttttcttgtggattcag

upper sequence: GRMZM2G010596_T01 (Zea mays), 5'ss of exon 3
lower sequence: AT2G46110.1 (Arabidopsis thaliana), 5'ss of exon 2
TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgttt------gttctttgctccgtaaaatgaggaggagaagtaagatca-cttgctttgctcacagatactgagatacaagatgttgactctggtcatatcca
||| ||||| || || ||  |||| || || || |||||||| || ||  | || || |||||||||||||||||||||||||| ||||| ||||| ||||||   ||      |||   | ||        |   | | ||     |||  |  |||| || |||| |  |  | |         ||   |  | |          
TGTTTTGGAATGCGTTCCACCTCCTGTAGCTGCTGCTGCAACTTCTGCCCTCAAGATACCAACCATTGGCATTGGGGCTGGACCTTTCTGCAGTGGACAGgttttatttgaaaagtttcgttctttccggttttgtgtgtagccaagagacaaatttgcatttctcatacctgttaattgttttcttggaaatgcag----------

upper sequence: GRMZM2G010596_T01 (Zea mays), 5'ss of exon 3
lower sequence: Vv15s0046g02170.t01 (Vitis vinifera), 5'ss of exon 3
TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgttctttgctccgtaaaatgaggaggagaagtaagatcacttgctttgctcacagatactgagatacaagatgttgactctggtcatatcca-
|||  | || ||||||||||| || ||||| || ||  ||||||||||  |   |||||| ||||||||||| || |||||||| ||||| ||||| ||||||  ||  |   |  |||  ||  | ||  |  |   ||    |   |   ||| ||    | | || ||| | || |||   ||   | |  | |    
TGTTCTTGAATGTGTGCCTGCACCTGTGGCTGCTGCAACAACATCAGCCCTTCGAATCCCCACCATTGGCATAGGAGCTGGACCTTTCTGCAGTGGACAGgttgattattctctatctctctactaagataaatacccgtgttttttgtatgttttctt-ttgttgctaagaaaaaatatgaaaaccaagttggtctattt

upper sequence: GRMZM2G010596_T01 (Zea mays), 5'ss of exon 3
lower sequence: PP1S130_272V6.4 (Physcomitrella patens), 5'ss of exon 5
TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgtt---cgtttgtt----ctttgctccgtaaaatgaggaggagaagtaagatcacttgctttgctcacagatactgaga---tacaagatgttgactctggtcatatcca---------------------------------------------------------
 ||| | ||||| || ||  ||||  | || |||||||  ||||| ||| | ||||| || |||||||| ||||| ||||| || |||||||||||||||||    ||| | |     | || |||  |    | |         ||     |||||||    |   |   |  ||  |   |    |   ||   | ||||    |  |                                                         
CGTGCTCGAGTGCGTTCCATCTCCTATTGCGGCAGCTGTTACATCCGCACTTAAAATTCCCACCATTGGGATTGGTGCTGGCCCTTTCTGTAGTGGCCAGgtagtacgtctctcataacctttctcttttccttcacccatgcttgtcga--cacttgccaatcaagcctgttttggcagcatttggggctttctttgtggttgattttaatttctaagtttttgtttgtttgtttgtttgtttgtttgttttaatgtgttttacag

upper sequence: GRMZM2G010596_T01 (Zea mays), 5'ss of exon 3
lower sequence: EFJ15486 (Selaginella moellendorffii), 5'ss of exon 4
TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgttctttg-----ctccgtaaaatgaggaggagaagtaagatcacttgctttgctcacagatactgagatacaagatgttgactctggtcatatcca
 ||  | |||||| | ||  | |||||||| || ||    || ||  | ||| | || |||||||| |||||||| ||||| || ||||| ||||||||||||  |  |    ||      || ||       |     | | | || | | |||  |||  |  |   | | |                               
GGTTCTCGAGTGTATACCATCGCCAGTGGCTGCTGCCATCACTTCGTCCTTGCAGATACCAACCATCGGCATTGGAGCTGGGCCTTTCTGCAGTGGCCAGgtttataagaaacttaacgttcttcgctcggaaacttacaaaggaaaaaacgcttctttttttttccattgcag-------------------------------

upper sequence: GRMZM2G010596_T01 (Zea mays), 5'ss of exon 3
lower sequence: EFJ24767 (Selaginella moellendorffii), 5'ss of exon 4
TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgtt-ctttgctccgtaaaatgaggaggagaagtaagatcacttgctttgctcacagatactgagatacaagatgttgactctggtcatatcca
 ||  | |||||| | ||  | |||||||| || ||    || ||  | ||| | || |||||||| |||||||| ||||| || ||||| ||||||||||||  |  |   |||  |         |  | |    |   | ||  |   |||||  |  |   | | |                               
GGTTCTCGAGTGTATACCATCGCCAGTGGCTGCTGCCATCACTTCGTCCTTGCAGATACCAACCATCGGCATTGGAGCTGGGCCTTTCTGCAGTGGCCAGgtttataagaaacttaacgttcgtcgctcggaaacttacaaaggaagaaacgcttttttttccattgcag-------------------------------

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|76925029|gb|DV170255.1|DV170255
EST:     GAAAATCCCAACCATTTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGC
genomic: GAAAATCCCAACCATT-GGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGC
EST: gi|149096806|gb|EE182592.2|EE182592
EST:     TGATAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|87155899|gb|DY400688.1|DY400688
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|149100426|gb|EE186501.2|EE186501
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|76014403|gb|DT941573.1|DT941573
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|149112325|gb|EE295216.2|EE295216
EST:     GGAAAATCCCACCCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGGTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|148963379|gb|EE014384.2|EE014384
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|50326184|gb|CO521310.1|CO521310
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|22542195|gb|BU092633.1|BU092633
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATC
EST: gi|149112326|gb|EE295217.2|EE295217
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGGACT-GTTAGGGATGCTGCAACACCC-CATC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATG-ACTTGTTAGGGATGCTGCAACACCCACATC
EST: gi|71762021|gb|DR959958.1|DR959958
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|74234159|gb|DT642073.1|DT642073
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|89247322|gb|DY619108.1|DY619108
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|148986222|gb|EE029970.2|EE029970
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGC
EST: gi|76925026|gb|DV170254.1|DV170254
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|148949339|gb|EC894793.2|EC894793
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGAC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGAC
EST: gi|148949338|gb|EC894792.2|EC894792
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|91869927|gb|EB400612.1|EB400612
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|91051986|gb|EB162404.1|EB162404
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTA
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTA
EST: gi|50331354|gb|CO526480.1|CO526480
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|71311050|gb|DR791837.1|DR791837
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|148981405|gb|EE027629.2|EE027629
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGA
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGA
EST: gi|50326633|gb|CO521759.1|CO521759
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|50330324|gb|CO525450.1|CO525450
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|78114102|gb|DV532491.1|DV532491
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|211281935|gb|FL354664.1|FL354664
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|148986221|gb|EE029969.2|EE029969
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGGTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|71766836|gb|DR964773.1|DR964773
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|91049382|gb|EB159800.1|EB159800
EST:     GAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: GAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|71448702|gb|DR829752.1|DR829752
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
EST: gi|148981404|gb|EE027628.2|EE027628
EST:     TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAG                         GTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC
genomic: TGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCC

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: 46 (upstream exon), 44 (downstream exon)
Score: 16

TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCCAAG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 41

TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCCAAG


Block sizes: 49 (upstream exon), 44 (downstream exon)
Score: 38

TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCCAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 69

TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgt ... tataatgcagGTCTTGGTGTACCATGACTTGTTAGGGATGCTGCAACACCCACATCATGCCAAG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGAAAATCCCAACCATTGGCATTGGGGCTGGACCATTCTGTAGTGGCCAGgttcgtttgttctttgctccgtaaaatgaggaggagaagtaagatcacttgctttgctcacagatactgagatacaagatgttgactctggtcatatcca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatgag