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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataagacagtatcctttacatctatggttctttctcattctccactaaattgcatttcctatgaaacgataaaatactatgttgttataaacatgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC

Basic information

species Zea mays
transcript GRMZM2G102421_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G102421_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os10g11260.2 (Oryza sativa), 3'ss of exon 4
-----gtataagac---agtatcctttacatctatggttctttctcattctccactaaattgcatttcctatgaaacgataaaatactatgttgttataaacatgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC
     ||  |||||    ||||    |    || |   |  |    ||| |||     | |   || ||| | || | ||    | |||||   |||||| | |||||| ||||| |||||||||||||||||| ||||||| ||||| || ||||||||| |||| ||||||||||||||||||||||||||||||||||||||||||||||
gtgaagtgcaagaccaaggtataagatggggctttctatgctatatattttcccagtgaatatgttgcctcttaaccaat----ttctatgc-attataa-cttgcatt-cagGTATACCATCCAAATATTGATTTGGAAGGAAATGTATGCCTGAACATTTTGCGTGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC

upper sequence: GRMZM2G102421_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os10g11260.3 (Oryza sativa), 3'ss of exon 4
gtataagacagtatcctttacatctatggttctttctcattctccactaaattgcatttcctatgaaacgataaaatactatgttgttataaacatgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC
||||||||  |     | ||           || | |  ||  ||| | |||    || ||| | || | ||    | |||||   |||||| | |||||| ||||| |||||||||||||||||| ||||||| ||||| || ||||||||| |||| ||||||||||||||||||||||||||||||||||||||||||||||
gtataagatggggctttctatg---------ctatatattttcccagtgaat-atgttgcctcttaaccaat----ttctatgc-attataa-cttgcatt-cagGTATACCATCCAAATATTGATTTGGAAGGAAATGTATGCCTGAACATTTTGCGTGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC

upper sequence: GRMZM2G102421_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA11G06830.1 (Glycine max), 3'ss of exon 4
gtataagacagtatcctttacatctatggttctttctcattctccacta-----aattgcatt---------tcctatgaaacgataaaatactatgttgt--tataaacatgcatttca-gGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC
   || ||  || |   |||  | | |   |||   || | ||  | |      || ||  ||         | || |   |   | | | | |   ||||   || | |  | || | | ||| || ||||||||||||||  ||||||| ||||| ||||| |||||  | || ||||||||||| ||||| || || || |||||||| || |||||| 
--gtaggatggtcttgattatcttttttactctaattcgtgctttagttttggtaagtgtgttgttttcttgttctgtttcatcttcataaatttatttgtagcattatctcgtatatgaagGTCTATCATCCAAATATTGACTTGGAAGGAAATGTTTGTCTCAACATCTTACGAGAAGATTGGAAACCTGTCCTTAATATAAACACTGTCATCTATGGCT

upper sequence: GRMZM2G102421_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA01G38470.1 (Glycine max), 3'ss of exon 4
---gtataagacag--tatcctttacatctatggttctttctcattctccactaaat--------tgcatttcctatgaaacgataaaatactatgttgttataaacatgcattt----cagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC
   | ||      |  |||| |||   ||| |  ||| | ||     |    ||| |        | | | | || |   |  || | | | | | ||  ||  |  ||    |     ||||| || ||||||||||||||  ||||||| ||||| ||||| |||||  | || ||||||||||| ||||| || || || |||||||| || |||||| 
gtaggatggtcttgattatcttttttttctctaattcgtgctttagttttggtaagtgtgttgttttcttgttctgtttcagcatcataaattttatttgtagcattatctcctatatgcagGTCTATCATCCAAATATTGACTTGGAAGGAAATGTTTGTCTCAACATCTTACGAGAAGATTGGAAACCTGTCCTTAATATAAACACTGTCATCTATGGCT

upper sequence: GRMZM2G102421_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA02G06580.1 (Glycine max), 3'ss of exon 6
---------------------------------gtat-aagacagtatcctttacatctatggttctttctcattctccactaaattgcattt--------------cctatgaaacgataaaatactatgttgttataaacatgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC
                                  ||| ||  || | |  ||||  |  ||  | | |  | | |||    |   |   ||||               || |   |   | |   | ||  |||| ||   |||  || | |||| |||||||||||||| ||  ||||||| ||||| || || ||||| || || ||||||||||| ||||| ||||| || ||| || | || || ||| 
gtaggaactaggagatcttggttatctttggtattattaactcattcttttttatgtacatcatacgtgtttaatcttgcttgtgtcatatttgtggtttttccttgtctgtttcaaagtcattaattaatttgtcatgt-catatatgt-agGTCTACCATCCAAATATAGACTTGGAAGGAAATGTTTGCCTTAACATCCTACGAGAAGATTGGAAACCTGTCCTCAATATAAACTCTATCATCTACGGCT

upper sequence: GRMZM2G102421_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT2G18600.1 (Arabidopsis thaliana), 3'ss of exon 4
gtataagacagtatcctttacatctatggttctttctcattctccactaaattgcatttcctatgaaacgataaaatactatgttgttataaacatgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC
                 |||    |    || || |||| ||||       ||  || |  | ||| | | | | | |  ||| |     |        ||  ||||||| ||||| ||||| ||||| ||||| || ||||||||||||||  |||| ||||| ||||| || ||||||||||| ||||| ||||| || || |
----------------gttaggctt----tttttcctcagtctctgaagcgttttatgttgtctgatatgtttatacagaatgctaaagaatgtcaatgttgtagGTGTATCATCCGAATATCGATCTAGAAGGAAACGTCTGTCTGAACATCTTGCGTGAAGACTGGAAACCGGTTCTCAACATAAACACAGTTATCTACGGTC

upper sequence: GRMZM2G102421_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT4G36800.1 (Arabidopsis thaliana), 3'ss of exon 4
gtataagacagtatcctttacatctatggt-tctttctcattctccactaaattgcatttcctatgaaacgataaaatactatgttgttataaacatgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC
|||     |     | |||||||   |  | |  ||  ||   || |||  |    |  || | ||    |   |||  || ||||| | |     |    || |||| || ||||| ||||| ||| ||||||| || || || ||||||||  |||| ||||||||||| |||||||| ||||| ||||| ||||| || || |
gtaggcctctcctccttttacatgccttatatagtttacagcttctacttca----aaatcgtttgtgttgtagaaactctttgttggttt-----tcttgtttagGTTTATCATCCCAATATCGATTTGGAAGGAAACGTTTGCCTGAACATCTTGCGTGAAGATTGGAAACCTGTTCTTAACATTAACACAGTTATCTACGGAC

upper sequence: GRMZM2G102421_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv18s0001g12010.t01 (Vitis vinifera), 3'ss of exon 3
--gtataagacagtatcctttacatctatggttctttctcattctccactaaattgcatttcctatgaaacgataaaatactatgttgttataaacatgcatttc----agGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC
  |   ||  |    |  |  |  | | |   | ||  |  | ||  ||||||||| | |    || |    ||     |     ||| ||  |   ||   | |    |||| |||||||| || |||||  ||| ||| ||||||||||| |||||||| || || || ||||| ||||| || ||||| |||||| | || ||||| |
gtgggcaaaccccagtagtccatttttgttaatgttcattctcctttactaaattgtactattaatcatgttatcctgcaagtaattgctaacattgtgtcctacctgcagGTCTACCATCCTAACATTGACTTGGCAGGAAATGTCTGTCTTAACATTCTTCGGGAGGACTGGAACCCTGTCCTAAACATAAACACTATCATCTATGGAC

upper sequence: GRMZM2G102421_T01 (Zea mays), 3'ss of exon 6
lower sequence: EDO97610 (Chlamydomonas reinhardtii), 3'ss of exon 4
gtataagacagta-tcctttacatctatggttctttctcattctccactaaattgcatttcctatgaaacgataaaatactatgttgttataaacatgcattt-cagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC
   |      ||  || ||||||   |   |   |       |     |   || | |||| ||  | ||    |    |||| |  |  |      |||    ||||||||||| || || ||||| |||||||||||  ||||||| ||||| |||||||| || |||||||| || ||   ||||| | | || || || || |
---tttccttgtgctcttttacacacacactgtctgtctgggcgggctttcgtttcgtttcttaacacac----acgccctatctcctcgtgtgtgcgcacacgcagGTGTACCACCCCAACATTGACCTGGAAGGCAAGATCTGTCTCAACATCCTGCGCGAGGACTGGAAGCCCGTGCTGTCCATCAGCTCCGTCATCTACGGAC

upper sequence: GRMZM2G102421_T01 (Zea mays), 3'ss of exon 6
lower sequence: PP1S61_126V6.1 (Physcomitrella patens), 3'ss of exon 4
--gtataagacagtatcctttacatctatggttctttctcattctccactaaattgcatttcctatgaaacgataaaatactatgttgttataaacatgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC
  ||| |   |   |     || ||  ||| || |    | |  || |   |||   |       | ||    |||    |||  |   |   ||  ||  |   |||| || ||||||||||| ||||||||||||||||| |||||||| ||||| || || |||||||||||||| || |   | ||| || | || ||||| |
gagtagacaccgacactgagtagattcatgattttgaaacgtcatcaatctaatgtaacgattgctcaagtcttaa----ctacttgacttacaatgtgtgt---agGTTTATCATCCAAATATAGATCTGGAAGGCAATGTGTGTCTGAATATTCTTCGTGAGGATTGGAAGCCTGTGCTGAGTGTAAACTCTATCATATATGGTC

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|71318266|gb|DR795897.1|DR795897
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|76926872|gb|DV171028.1|DV171028
EST:     TGTCCCCATCTTATCTTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATTTGGAAGGCAATGTCTGTTTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|93281549|gb|EB673813.1|EB673813
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|32866740|gb|CF006422.1|CF006422
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|71330723|gb|DR802147.1|DR802147
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|93011818|gb|EB637338.1|EB637338
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTTTGAACATTTTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|76291264|gb|DV030832.1|DV030832
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|89249994|gb|DY621780.1|DY621780
EST:     TGTCCCCATTTTATCTTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|14243863|gb|BG841649.2|BG841649
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|18383531|gb|BM416731.1|BM416731
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|93284370|gb|EB676634.1|EB676634
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGAACAAA                         GTGTACCATCCAA
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAA
EST: gi|14243250|gb|BG840892.2|BG840892
EST:     CCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: CCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|71307692|gb|DR790064.1|DR790064
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATTTGGAAGGCAATGTCTGTCTGAACATTTTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|76292278|gb|DV031846.1|DV031846
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|88746571|gb|DY530712.1|DY530712
EST:     TGTCCCCATCTTATCTTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|71318264|gb|DR795896.1|DR795896
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|18168063|gb|BM337903.1|BM337903
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|211291788|gb|FL131031.1|FL131031
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAA-GTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|101386237|gb|EB815149.1|EB815149
EST:     TGTCCCCATCTTATCCTCATGATCCTCGGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|88752393|gb|DY536534.1|DY536534
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|76292279|gb|DV031847.1|DV031847
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|71307694|gb|DR790065.1|DR790065
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|71442438|gb|DR823488.1|DR823488
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|28983938|gb|BQ538902.2|BQ538902
EST:     AGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: AGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|211291787|gb|FL131030.1|FL131030
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG
EST: gi|93284369|gb|EB676633.1|EB676633
EST:     TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAG                         GTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTTTGAACATTCTG
genomic: TGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTG

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 3 RNA-Seq libraries.


Block sizes: 44 (upstream exon), 35 (downstream exon)
Score: 2

GGGCGGCACTTTCGTTTTCACCTTTCAAGTGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC


Block sizes: 37 (upstream exon), 47 (downstream exon)
Score: 6

GGGCGGCACTTTCGTTTTCACCTTTCAAGTGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 6

GGGCGGCACTTTCGTTTTCACCTTTCAAGTGTCCCCATCTTATCCTCATGATCCTCCGAAGGTCAAATGCAAGACCAAGgtataagaca ... tgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgcatttcctatgaaacgataaaatactatgttgttataaacatgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC
                    ataaaatactatgttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataagacagtatcctttacatctatggttctttctcattctccactaaattgcatttcctatgaaacgataaaatactatgttgttataaacatgcatttcagGTGTACCATCCAAATATTGATCTGGAAGGCAATGTCTGTCTGAACATTCTGCGCGAAGATTGGAAGCCTGTTCTCAACATCAACACTGTTATTTATGGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG