Skip to another splice site:
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctctgtgtttgttatttgttggatgggattgttgacaatgaaccatagtgttctgaagttttgcaaccacagcaagctaacctgtttgcttccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC

Basic information

species Zea mays
transcript GRMZM5G851698_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G851698_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g42950.1 (Oryza sativa), 3'ss of exon 5
ctctgtgtt-tgttatttgt-tggatgggattgttgacaatgaaccatagtgttctgaagttttgcaaccacagcaagctaacctgtttgcttccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC
| |  | || | || | ||  ||  ||  | | || |     ||  |||   | | |     || |  |   | | | ||||     ||| ||   || |||||||||||||||||||||| |||||||||||||| |||||||| ||| | |||||||||||||||||||| ||||| |||||||||||||||||||||||
caccatattatattgtctgcatgtttgtcagttttcaagtcaaaatatatcttccaggtagctttctgct-tacctacctaatggtgttg-ttgtgttgcagGCAAGAAGGTGAGCAAGGCTCCTAAGATCCAGCGTCTTGTGACTCCCCTCACCCTCCAGAGGAAGCGTGCCAGAATCGCTGACAAGAAGAAGAGGATCGC

upper sequence: GRMZM5G851698_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA16G09330.1 (Glycine max), 3'ss of exon 3
ctctgtgtttgttatttgttggatgggattgttgacaatgaaccatagtgttctgaagttttgcaaccacagcaagctaacctgtttgcttcct--tttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC
  || |  |   ||| |||    |    |  |  | |   ||  | | |    | |  |  |   |  |   | ||      |  | | ||  |  || |||| || ||||| ||||| || || ||||| ||||| || || || ||  |||| || || |||||||| || ||||||||||| ||||||||||| |||||
--ctttaatcaatatatgtgatgtttcctcttcaatatccaattaaaatcggatcagttcatattatgaattctagtctcagtaatggatttttggttgcagGGAAAAAGGTAAGCAAAGCTCCAAAGATTCAGCGACTCGTCACTCCACTGACACTGCAAAGGAAGCGGGCAAGAATTGCTGATAAGAAGAAGAGAATCGC

upper sequence: GRMZM5G851698_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA15G08210.1 (Glycine max), 3'ss of exon 5
-ctctgtgtttgttatttgttggatgggattgttgacaatgaaccatagtgttctgaagttttgcaaccacagcaag-ctaacctgtttgc-ttccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC
  | | || | ||| |||| ||| | |||    |   |    |  ||  | ||    |   |||  |  |   | || || |  |   |   ||   ||  ||| || ||||||||||| || |||||||| || ||||| || || ||| |||||||||| || ||| | || || ||||| || ||||||||||| || ||
tatttatgct-gttgtttgatgggtaggacccattgaaggagattat--ttttggacatgattgtgatgatttctagtctgagttacatatgtttggttgtagGGAAAAAGGTGAGCAAAGCTCCTAAGATACAACGGCTGGTCACTCCCCTGACCCTCCAAAGAAAGAGGGCAAGGATTGCAGATAAGAAGAAGAGAATTGC

upper sequence: GRMZM5G851698_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT4G31700.1 (Arabidopsis thaliana), 3'ss of exon 5
ctctgtgtttgttatttgttggatgggattgttgacaatgaaccatagtgttctgaagttttgcaaccacagcaagctaacctgtttgcttccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC
      ||  |  | |        |  || || |    |||| || | |      |   | |      | |      |   |||||||  |  ||  |||||||| | || ||||| || |||||||||||| ||||||||||||| ||||| || ||||||||| | |||||||||||||||||||||||||  || ||
------gtgagacactgaacttgagaaatagtggtttctgaatcacacttgagaaataatgttttctgaaacttgtttcttctgtttggatttttgacagGCAAGGAAGTTAGCAAAGCCCCTAAGATCCAGAGGCTTGTGACCCCATTGACTCTTCAGAGGAAGAGAGCTAGAATTGCTGACAAGAAGAAGAAAATTGC

upper sequence: GRMZM5G851698_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT5G10360.2 (Arabidopsis thaliana), 3'ss of exon 5
-------------ctctgtgtttgttatttgttggatgggattgttgacaatgaaccatagtgttctgaagttttgcaaccacagcaagctaacctgtttgcttccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC
              |  |    |   |||   |  | | |||  |||| ||      |||   |  ||| | ||| | |  | |  | |||           | | | | ||||||||||||| |||||||| |||||||||||| |||||||||| || |||||||||||||||||| | |||||||||||||||||||||||||| |||||
acaaacaagaagggtaagaaaattagattcacttaaagagataattgaaaactgtttatacgat--tgatgatttactaatatatgaggct-----------tccatgtgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTGACTCCATTGACCCTCCAGAGGAAGAGAGCTAGAATTGCTGACAAGAAGAAGAGAATCGC

upper sequence: GRMZM5G851698_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT5G10360.1 (Arabidopsis thaliana), 3'ss of exon 5
ctctgtgtttgttatttgttggatgggattgttgacaatgaaccatagtgttctgaagttttgcaaccacagcaagctaacctgtttgcttccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC
 |  |    |   |||   |  | | |||  |||| ||      |||   |  ||| | ||| | |  | |  | |||           | | | | ||||||||||||| |||||||| |||||||||||| |||||||||| || |||||||||||||||||| | |||||||||||||||||||||||||| |||||
gtaagaaaattagattcacttaaagagataattgaaaactgtttatacgat--tgatgatttactaatatatgaggct-----------tccatgtgcagGCAAGAAGGTTAGCAAGGCTCCTAAGATCCAGAGGCTTGTGACTCCATTGACCCTCCAGAGGAAGAGAGCTAGAATTGCTGACAAGAAGAAGAGAATCGC

upper sequence: GRMZM5G851698_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv03s0017g01350.t01 (Vitis vinifera), 3'ss of exon 5
ctctgtgtttgttatttgttggatgggattgttgacaatgaaccatagtgttctgaagttttgcaaccacag--caagctaacctgtttgct-tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC
  |||   ||   || || ||  |   | | ||      | |   |  | ||   |||  |    ||   ||    |  |    |  |  || |  |  ||||| |||||    || || || |||||||| ||| |||| |||||||| ||||| || |||||||||||||| || ||||| || ||||||||||| || ||
-actgaaatt--catgtgatgcttaaaagtattatttcagtattttgctttttaaaagactaaagacagaagattgatatggtttcatcactgtgatcctcagGGAAGAAATGCAGTAAAGCCCCTAAGATTCAGAGGCTGGTGACCCCATTGACTCTGCAGAGGAAGCGTGCAAGGATTGCAGAGAAGAAGAAGAGAATTGC

upper sequence: GRMZM5G851698_T02 (Zea mays), 3'ss of exon 5
lower sequence: PP1S3195_1V6.1 (Physcomitrella patens), 3'ss of exon 2
-------------------------ctctgtgttt-gttatttgttggatgggattgttgacaatgaaccatagtgttctgaagttttgcaaccacagcaagctaacctgtttgcttccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC
                             || ||| |  ||   |    | |    || | | ||| |     | |  |     |      | | |   |       |||  ||| | |||| |||||||||||  |||||||||||| ||||||||| |||||||||| || |||||  | |||||||||||   |||| | ||   |||||||  | |  ||||
gtacagtcatggctcctgatgtgggtgtcgtattttgccatgcttcctttcgtgcagtcgccgatgtagagcgggggccattgttgcgaggagccctctactgacgtctgcgtgcgtgcttt-cagGCAAGAAGAGGAGCAAGGCACCGAAGATCCAGAGGCTTGTGACTCCTTTGACTTTGCAGAGGAAGCGCCGTAGAGTGGCAATCAAGAAGGCGCGTGTCGC

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|149077415|gb|EE166104.2|EE166104
EST:     CGTGCGCAAGTACGTGAACACGTTCCGCAGGACATTCACTTCCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|60338176|gb|DN205149.1|DN205149
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|149077949|gb|EE166681.2|EE166681
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|33102879|gb|CF062839.1|CF062839
EST:     GTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: GTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|76923081|gb|DV169325.1|DV169325
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|32944070|gb|CF048889.1|CF048889
EST:     ACGTGAACACATACCGCAGGACATTCACTACCAAGAACG                         GCAAGAAGGTCAGCAAGGCACCTAAGATCCAACGGCTTGTGACACCCTTGA
genomic: ACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|211523896|gb|FL150680.1|FL150680
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCGAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTG
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGC-AAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTG
EST: gi|60395612|gb|DN228482.1|DN228482
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|19058270|gb|BM736937.1|BM736937
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|149081498|gb|EE170633.2|EE170633
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|33092289|gb|CF052283.1|CF052283
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAGGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|33092314|gb|CF052308.1|CF052308
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|19058130|gb|BM736797.1|BM736797
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|213171278|gb|FM184678.1|FM184678
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|149097337|gb|EE183170.2|EE183170
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|78079211|gb|DV507623.1|DV507623
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|78088885|gb|DV517278.1|DV517278
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|148969224|gb|EE019976.2|EE019976
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|67016348|gb|CO445097.1|CO445097
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|148954012|gb|EC899409.2|EC899409
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|30088233|gb|CB886438.1|CB886438
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|71428550|gb|DR809600.1|DR809600
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|5740271|gb|AI947961.1|AI947961
EST:     CGTGCCCAAGTACGTGAACACGTACCCCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|13149829|gb|BG320151.1|BG320151
EST:     GCGCAAGTTACGTGAACACGTACCGCAGGACATTCACTTACCAAGAATTG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTG
genomic: GCGCAAG-TACGTGAACACGTACCGCAGGACATTCAC-TACCAAGAA-TGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTG
EST: gi|15632345|gb|BI679438.1|BI679438
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAG
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAG
EST: gi|101383670|gb|EB813890.1|EB813890
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|148955067|gb|EC900578.2|EC900578
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTCCCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGC
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|148966135|gb|EE017078.2|EE017078
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|71428551|gb|DR809601.1|DR809601
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|19057795|gb|BM736462.1|BM736462
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|148955068|gb|EC900579.2|EC900579
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|29945711|gb|CB815780.1|CB815780
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|78075296|gb|DV503730.1|DV503730
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|20300275|gb|BQ163218.1|BQ163218
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCG
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCG
EST: gi|78088886|gb|DV517279.1|DV517279
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|93284111|gb|EB676375.1|EB676375
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|31406383|gb|CD485115.1|CD485115
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACC
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACC
EST: gi|211025728|gb|FL435836.1|FL435836
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|67010291|gb|CO439040.1|CO439040
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GGCA-GAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTG
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagG-CAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTG
EST: gi|148969223|gb|EE019975.2|EE019975
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|31406382|gb|CD485114.1|CD485114
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGA
EST: gi|22935788|gb|BU572063.1|BU572063
EST:     CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATG                         GCAAGAAGGTGA
genomic: CGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGA

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: 1233

AAAAGGGCCTCCAAGATCAGGAAGCTGTTCAATCTTGCAAAGGATGACGACGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 972

AAAAGGGCCTCCAAGATCAGGAAGCTGTTCAATCTTGCAAAGGATGACGACGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 877

AAAAGGGCCTCCAAGATCAGGAAGCTGTTCAATCTTGCAAAGGATGACGACGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 481

AAAAGGGCCTCCAAGATCAGGAAGCTGTTCAATCTTGCAAAGGATGACGACGTGCGCAAGTACGTGAACACGTACCGCAGGACATTCACTACCAAGAATGgtgagctttc ... tccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtgttctgaagttttgcaaccacagcaagctaacctgtttgcttccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC
                             agctaac  putative branch site (score: 481)
                                   cctgtttgcttccttt  CT-rich tract
          aagtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctctgtgtttgttatttgttggatgggattgttgacaatgaaccatagtgttctgaagttttgcaaccacagcaagctaacctgtttgcttccttttcagGCAAGAAGGTGAGCAAGGCACCTAAGATCCAGCGGCTTGTGACCCCCTTGACCCTCCAGAGGAAGCGTGCTAGAATTGCTGACAAGAAGAAGAGGATCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - -tgtttgt
- - - - - - - tttgttg
- - - - - - - - - - - - - - ttgttga
- - - - - - - - - - - - - - - - - - - tgaacca
- - - - - - - - - - - - - - - - - - - - - - - - tgttctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcaagct