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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttatatatttaagattaaccttttctattagctaattaaatgacaaattgatgtcgttgtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG

Basic information

species Zea mays
transcript GRMZM2G094497_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 9
ttttatatatttaagattaaccttttctattagctaattaaatgacaaattgat-gtcgttgtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
   | |   |||| | |  ||       | |    ||||   ||| |  ||  |  | ||  ||   | |||| | ||| ||  ||||||||| | ||||||| || |||||||||||||| ||||||||||||||||| |||||||||||||||||||||||| ||||||| ||||||||||| ||||||||||||||||
acatctccttttatgttcgactgcaataaatgataaattgc-tgaaattttatttattgtgattggcactaatacaacacggtaattgtgcttatatgtagGTATCAGCAGCCCGAGAAGAAGTGCCAGGTAGGCGTGGGTATCCTGGATATATGTATACTGATCTGGCAACCATATATGAGCGAGCTGGGCGTATTGAAG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA18G48280.1 (Glycine max), 3'ss of exon 9
-----ttttatatatttaagattaaccttttctattagctaattaaatgacaaattgatgtcgttgtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
      ||||||| |||       |   ||   | || | || ||  |  ||||    |       ||   |||    |||      | || ||  | || |||||| ||||| ||||||||||| || || ||||| ||||| ||||| || || |||||||| ||| | ||||||||||| || ||||||||  | ||||| |
catgtatttatatctttttctcagagtattagaagtaacaaagtattttgcaaacaattag----attgacaatggaactattaaccccttctggatctt-gtagGTATCTGCTGCCCGAGAAGAAGTACCTGGTAGACGTGGGTATCCCGGCTACATGTATACAGATCTTGCAACAATATACGAACGTGCTGGAAGAATTGAGG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA10G42940.2 (Glycine max), 3'ss of exon 9
-------------------------------------------------------------------------ttttatat--atttaagattaaccttttcta------ttagctaattaaatgacaaattgatgtcgttgtttctaataatgctaca-tgggcattgtgctt--ttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
                                                                         ||| ||    |||||| ||| || || | |       || | | |||    ||  |   ||  |   ||    || |  |   ||| |  ||||    |||  |   |||||| ||||| ||||||||||| |||||||| || |||||||||||||||||||||||||| ||| | |||||||| ||||| || |||||| | ||||| |
gtaatttaccttcaactgttattagtttggaagaagcaacaaaaagataggggacttgaaaccttttataggctttaatgatgatttaaaattgacattcttttatgcctttggtttattcttggagtatgagaaataactgaaaatatttctataacaatttgcatgacacttgatcccgtagGTATCTGCTGCCCGAGAAGAAGTGCCAGGAAGACGTGGTTATCCTGGATATATGTATACAGATCTTGCAACAATTTATGAACGAGCTGGGAGAATTGAGG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA20G24070.1 (Glycine max), 3'ss of exon 10
ttttatatatttaagattaaccttttctatta--gctaattaaatgacaaattgatgtcgttgtttctaataatgctaca-tgggcattgtgctt--ttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
      || |   |  |     ||||| | ||   || |||    ||  |   ||  |   ||    || |  |   ||| |  ||||    |||  |    ||||| ||||| ||||||||||| ||||| ||||| |||||||||||||||||||||||||| ||| | |||||||| ||||| || |||||| | ||||| |
-----aatgtgggacttgggttttttccaatatgacttatttttggagtatgagaaataactgaacatatttctcaaacaatttgcatgacacttgatcccatagGTATCTGCTGCCCGAGAAGAAGTGCCGGGTAGACGTGGTTATCCTGGATATATGTATACAGATCTTGCAACAATTTATGAACGAGCTGGGAGAATTGAGG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA09G38110.2 (Glycine max), 3'ss of exon 9
-ttttatatatttaagattaaccttttctattagctaattaaatgacaaattgatgtcgttgtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
  ||||| ||| |    ||  ||   | ||  |  ||| ||| |         |        ||   |||    |||  ||  |  |      |  ||||||| ||||| ||||||||||| || || ||||| ||||| || || || || |||||||| ||| | ||||||||||| || ||||||||  | ||||| |
catttatttatctctttttctccgactataaaaagtaactaagtattttgcaaacaattagattgacaatggaactat-tgaccccttctggatcctgtagGTATCTGCTGCCCGAGAAGAAGTACCTGGTAGACGTGGGTACCCCGGTTACATGTATACAGATCTTGCAACAATATACGAACGTGCTGGAAGAATTGAGG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 9
ttttatatatttaagattaaccttttctattagc-taattaaatgacaaattgatgtcgttgtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
           ||| || ||  |||  ||   |  || ||   | |     |    |  || || ||  | ||| |  ||    |   ||      |||||||||| || |||||||||||||| || || || ||||| ||||| || |||||||| |||||| | ||||| || ||||| |||||||||||||| ||||
----------gtaaaatgaatatttgataccggagtagttcctttatttcataccatgttttttcctcttcatgtttgataataagattgagaaactgtagGTTTCCGCTGCCCGAGAAGAGGTTCCCGGAAGACGTGGATATCCAGGTTATATGTACACTGATCTTGCAACTATTTATGAACGTGCTGGGCGTATAGAAG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT1G20260.1 (Arabidopsis thaliana), 3'ss of exon 9
ttttatatatttaagattaaccttttctattagctaattaaatgacaaattgatgtcgttgtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
  | ||   ||| |       | ||| | |  |     | | | | || ||||| |    | ||  |||||   || |    | | |  || |     |||||||||| || |||||||| || || || || ||||| ||||| || ||||||||||| ||| | ||||| || ||||| || || || ||||||||||
-gtaatgagtttca---ctgtcctttgtgtatgtcccatgattcaaaatttgatttaa--gctttgaataaaatta-acaaacgt-gaactct-----agGTTTCTGCTGCTCGAGAAGAAGTTCCTGGAAGACGTGGATATCCGGGGTATATGTATACAGATCTTGCAACTATTTATGAACGCGCGGGACGTATTGAAG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 3'ss of exon 9
-tttta--tatatttaagattaaccttt-tctattagctaattaaatgacaaattgatgtcgttgtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
 || ||  | | ||   || ||   ||  || | || |  ||| |||     |      ||  || | ||  | |||| |  |    ||||        || |||| ||||| ||||||||||| || || || |||||||| |||||||| ||||||||||||||| |||| || || ||||| |||||||| ||||||||||
cttctaattttgttcttgagtatttttaatcaagtaccccattgaattcttcaaactcatcactgatgcttgtgatgcaaactacttattgca----actgcagGTATCTGCTGCCCGAGAAGAAGTTCCCGGGAGGCGTGGGTATCCTGGGTATATGTATACTGATCTGGCGACGATTTATGAACGTGCTGGACGTATTGAAG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 9
ttttatatatttaagattaaccttttctattagctaattaaatgacaaattgatgtcgttgtttctaataatgctacatgggcattgtgctttt-ttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
 || |||  ||| | | | |        ||    |  |  | ||    |||       ||  ||  |   |    ||  |     | || |||   || |||| ||||||||||| || || || || || |||||||| |||||||| ||||||||||||||| | |||||||| |||||||||||||| ||||| ||||
cttcataggttttaaaatcatacggataatcgaatt-tctattgcaccattcccacacttactttcacctacttgactggaaatgtctgttttgactgcagGTATCTGCAGCCCGGGAGGAAGTACCTGGAAGGCGTGGGTATCCTGGGTATATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 3'ss of exon 8
-------------------------------------------------------------------------------------------ttttatatatttaagattaaccttttctattagctaattaaatgacaaattgatgtcgtt-gtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
                                                                                           | | | ||| ||   |   |  |||   ||    | | |   |    |||| |   | |  || |   | ||   |         |      ||    ||||||||||| || || ||||| ||||| ||  | ||||| |||||||| || |||||||||||| |||| || || ||||| |||||||| || || ||||
gtacaagtgtttctcttaaagacttttcgcttggactcctttttcagaagttagctcctgtgaaattctacatgctactccgcagttggtatctgaaatagtttttaagcaaatttgtaatctattcagttggtttttaattaagaccttcagtgtgctacaaattttttccactctcaattcttcaaatagGTTTCTGCTGCTCGTGAAGAAGTGCCTGGGCGTCGTGGATATCCTGGTTACATGTATACTGATCTGGCCACCATTTATGAACGTGCTGGACGAATCGAAG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: EFJ11911 (Selaginella moellendorffii), 3'ss of exon 8
ttttatatatttaagattaaccttttctattagctaattaaatgacaaattgatgtcgttgtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
                                         |||  |  ||    ||    ||   |  |  ||||  ||   |    |  ||| ||||||| ||||| || || || |||||||| ||| | ||||| |||||||| ||||||||||| |||||||||||||| || ||||||||||| || |||||||
---------------------------------------gtatggtatgtt----tcaagtttgtcatgagagcta--tgataaccagggctttgtgtagGTGTCTGCCGCTCGTGAGGAGGTGCCTGGTCGTCGTGGATATCCTGGTTATATGTATACAGATTTGGCAACAATTTACGAGCGTGCTGGACGAATTGAAG

upper sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 9
lower sequence: EFJ13375 (Selaginella moellendorffii), 3'ss of exon 8
ttttatatatttaagattaaccttttctattagctaattaaatgacaaattgatgtcgttgtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
                                         ||||     || |      |||| | || |   |  |||   |   ||  ||| ||||||| ||||| || || || |||||||| ||| | ||||| |||||||| ||||||||||| |||||||||||||| || ||||||||||| || |||||||
---------------------------------------gtatgatcgtatgtttcaa--gtttttcatgagagt-tatgataaccatggctttgtgtagGTGTCTGCCGCTCGTGAGGAGGTGCCTGGTCGTCGTGGATATCCTGGTTATATGTATACAGATTTGGCAACAATTTACGAGCGTGCTGGACGAATTGAAG

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|32929245|gb|CF034057.1|CF034057
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|5915388|gb|AW053029.1|AW053029
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|6445489|gb|AW179407.1|AW179407
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|32928465|gb|CF033277.1|CF033277
EST:     ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|4681248|gb|AI629918.1|AI629918
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|211474169|gb|FL062077.1|FL062077
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|67040204|gb|CO466459.1|CO466459
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|32929097|gb|CF033909.1|CF033909
EST:     ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|32944174|gb|CF048993.1|CF048993
EST:     ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGGG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|13125954|gb|BG316629.1|BG316629
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|32838699|gb|CD978380.1|CD978380
EST:     ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|6056572|gb|AW090977.1|AW090977
EST:     AGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: AGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|33092363|gb|CF052357.1|CF052357
EST:     ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|32928990|gb|CF033802.1|CF033802
EST:     ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|32944913|gb|CF049732.1|CF049732
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGGG                         GTTTCTGCAGCCCGAGAAGAGGTACCAGGTAGGCGTGGTTATCCTGCATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|31351441|gb|CD435798.1|CD435798
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|32928322|gb|CF033134.1|CF033134
EST:     ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|67020067|gb|CO448816.1|CO448816
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAAGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|24934300|gb|CA452518.1|CA452518
EST:     ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: ACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|33101328|gb|CF061288.1|CF061288
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|6021392|gb|AW066320.1|AW066320
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|13125942|gb|BG316617.1|BG316617
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|13125963|gb|BG316638.1|BG316638
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|60343460|gb|DN210433.1|DN210433
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|13125933|gb|BG316608.1|BG316608
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
EST: gi|31351755|gb|CD436112.1|CD436112
EST:     TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAG                         GTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT
genomic: TACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATAT

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: 741

GATTGCTCTAACAACAGCGGAATATTTGGCATATGAATGTGGGAAGCATGTACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1357

GATTGCTCTAACAACAGCGGAATATTTGGCATATGAATGTGGGAAGCATGTACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 920

GATTGCTCTAACAACAGCGGAATATTTGGCATATGAATGTGGGAAGCATGTACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1156

GATTGCTCTAACAACAGCGGAATATTTGGCATATGAATGTGGGAAGCATGTACTTGTTATCTTGACAGATATGAGCTCTTATGCAGATGCACTTCGTGAGgtattgagtt ... ttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaattgatgtcgttgtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG
                 ttctaat  putative branch site (score: 1156)
                                          tgctttttt  putative PPT
             ttgtttctaataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttatatatttaagattaaccttttctattagctaattaaatgacaaattgatgtcgttgtttctaataatgctacatgggcattgtgcttttttgtagGTTTCTGCAGCCCGAGAAGAGGTGCCAGGTAGGCGTGGTTATCCTGGATATATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - attgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctacatg