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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctattatgagtccataggctttgttttcagacatgatgtgtaagatgaattgacatctactgttttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG

Basic information

species Zea mays
transcript GRMZM2G094497_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 13
gtacctattatgagtccataggctttgt----tttcagacatgatgtgta-----agatgaattgacatctactgttttctgtt-cagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
|||   |||  || ||||||   ||  |    ||| ||  |||     ||     ||  ||  | |  | | ||||||  |||| |||||||||||||||||||| ||||| |||||||| ||||||||||| || || || ||||||||||| ||||| ||||||||||||
gtaaacatttggactccatacatttgatttcatttaagctatggcaaatacttacagtggagctcatttatgctgtttcatgttacagCTTTATGCCAACTATGCAATTGGGAAGGATGTCCAGGCCATGAAAGCCGTTGTGGGAGAGGAGGCGCTCTCTTCTGAGGATCTG

upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA20G24070.1 (Glycine max), 3'ss of exon 14
----gtacctattatgagtccataggctttgttttcagacatgatgtgtaagatga---attgacatctactgttttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
     |    ||  |  || |||     || ||||      |       |   |     ||| |  |    | | || | ||||||| ||||| || |||||||||||||||||||| ||||| ||||| || || |||||||| || ||||| || |||||||| |||
gtctctgatcatgttttgttcatcacagttatttttctgtttatcacacagactatctcattcatgttatttttatttttttcagCTCTATGCAAATTATGCTATTGGAAAGGATGTCCAGGCAATGAAAGCAGTGGTTGGAGAAGAAGCACTTTCATCTGAGGACCTG

upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA10G42940.3 (Glycine max), 3'ss of exon 13
------gtacctattatgagt-ccataggctttgttttcaga-catgatgtgtaagatga---attgacatctactgttttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
      |  | | || ||     || |   ||  ||||| |  ||| |  |  |  ||     ||| |  |    | | || | ||||||| || || || |||||||| ||||||||||| ||||| ||||| || || |||||||| || ||||| || |||||||| |||
gtctctgatcttgttttgttcatcacatagttatttttctgttcatcacatagactatatctcattcatgttatttttatttttttcagCTCTACGCAAATTATGCTATCGGAAAGGATGTGCAGGCAATGAAAGCAGTGGTTGGAGAAGAAGCACTTTCATCTGAGGACCTG

upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA18G48280.1 (Glycine max), 3'ss of exon 13
gtacctattatgagtccatag-gctttgttttcagacatgatgtgtaagatga---attgacatctactgttttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG-
   |   || ||  | | ||   | ||| | |      || | | |||        ||||   |    |  ||||| || |||| ||||| || ||||| |||||||||||||| ||||| ||||| || || || ||||| || ||||| || |||||||| ||| 
--tctggttttgcctgcttaccacattgctattttttctg-tttataaaccatctcattggtgttattttgtttcttttaagcTCTATGCAAATTATGCCATTGGAAAGGATGTCCAGGCAATGAAAGCCGTGGTCGGAGAAGAAGCACTTTCATCTGAGGACCTGG

upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA09G38110.1 (Glycine max), 3'ss of exon 13
gtacctattatgagtccatag-gctttgttttcagacatgatgtgtaagatgaattgacatctactgttttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
|| |   || ||  |   ||   | ||| | |      || | | ||||     ||         |  ||||| ||||||| ||||| || ||||| |||||||||||||| ||||| ||||| ||||| || ||||| || ||||| || |||||||| |||
gt-ctggttttgcttgtttactacattgctattttttctg-tttataagccatcttattggtgttttgtttcttttcagCTCTATGCAAATTATGCCATTGGAAAGGATGTCCAGGCAATGAAAGCTGTGGTCGGAGAAGAAGCACTTTCATCTGAGGACCTG

upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: AT4G38510.4 (Arabidopsis thaliana), 3'ss of exon 14
-----------------------------------gtacctattatgagtccataggctttgttttcagacatgat--gtgtaagatgaattgacatctactgttttctg--ttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
                                     |     | ||  |   || | |||  ||    || |  |  |  | || | || |      ||   |||| ||  ||||| | |||||||| || |||||||||||||| || ||||||||||| || || |||||||| || || || || || |||||||||
gtaagactttatttcttgtccattaccagcattgcagaaaagctttgtttatgtaagttttacttgtcaacttttttagcctgagcttaacttgttattatgtttttgtgatttcagTTGTATGCCAATTACGCTATTGGAAAGGACGTGCAGGCCATGAAAGCCGTGGTTGGAGAAGAAGCTCTTTCTTCCGAGGATCTG

upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 13
---gtacctattatgagtccataggctttg----ttttcagacatgatg-tgtaagatgaattgaca---tctactgttttctg---ttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
     |   |  | |  |   |  | |||     || ||    ||  || | ||||      | ||     ||  || ||| |    ||||||| ||||| || |||||||||||||||||||| ||||| ||||| ||||| || |||||||| |||||||| ||||||||||||
gtaagattcagaaggcttaagtgtgtttttaattttctccattatattgctttaaggcctcctaaccgaccctgttgatttttcaccttcagCTATATGCGAATTATGCTATTGGAAAGGATGTCCAGGCAATGAAAGCTGTGGTCGGAGAGGAAGCACTCTCTTCTGAGGATCTG

upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 3'ss of exon 13
gtacctattatgagtccataggctttgttttcagacatgatgtgtaagatgaattgacatctactgttttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
|||  ||||    || |   ||||  |||  |   |    || | | |    |   |   | | | || |   ||||||| ||||| || ||||| ||||| ||||||||||| || ||||| ||||| |||||||| || ||||| || ||||||||||||
gtag-tatttgatgttcg--ggctgcgttcaccttctctttgagcacgtcccaactaatgcgattcttcttctttcagCTCTATGCAAATTATGCAATTGGGAAGGATGTTCAAGCAATGAAAGCTGTGGTTGGAGAAGAAGCACTTTCTTCTGAGGATCTG

upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: PP1S100_117V6.1 (Physcomitrella patens), 3'ss of exon 13
----------------gtacctattatgagtccataggctttgttttcagacatgatgtgtaagatgaattgacatctac-----tgttt-tctgttc-agCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
                | | || |    ||| | ||     | ||   | |   |   || |    ||| | ||| |||      |||||  |||| | || | ||||| || ||||| ||||||||||||||||| || ||||||||||||||||||||||| ||  | || || || ||||||
tttttgtttcaagcatgcaact-tctcaagtgcctaatgcctattacgaaatcaggaatggatagggaacttacacctaacatcatgtttgcctgtcccagTTGTATGCTAATTATGCCATTGGAAAGGATGTTCAAGCAATGAAGGCTGTCGTTGGAGAGGAAGCTTTGTCTTCAGAAGATCTG

upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 3'ss of exon 12
-------gtacctattatgagtccataggctttg----ttttcagacatgatgtgt-------aagat----gaattgacatctactgttttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
       |  | |  | || | ||||   |||      ||||| ||     | ||        ||||     |  || ||||    | |   |  | ||| | || || |||||||| |||||||||||||| || |||||||||||||| || ||||| || ||  | || || |||||||||
cacatgagagcatcatttgtggccatcaacttccccatttttctgatgaagtctgcttgagtcaagactttgggtttaacatggtgtctacccattgcagTTGTACGCAAACTATGCGATTGGAAAGGATGTACAAGCCATGAAGGCTGTGGTGGGAGAAGAAGCCTTGTCTTCAGAGGATCTG

upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: PP1S85_75V6.1 (Physcomitrella patens), 3'ss of exon 12
-------------------gtacctattatgagtccataggctttgtt--ttcagacatgatgtgtaagatgaatt-gacatctactgttttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
                     |  | |||    || ||     |  ||   || |  |  ||| | |   || ||| ||||  |  |   |||  | ||| | || || || |||||||| || |||||||| || |||||||||||||| || |||||||| ||  | || || || ||||||
tttatttcaagtaacttcctcaatttttaatgttcaatgttgataattaactctgtgacaatggggagtttggatttgacaagtcgttgattcattgcagTTGTACGCAAATTATGCTATCGGGAAGGATGTGCAAGCCATGAAGGCTGTGGTGGGAGAGGAAGCCTTGTCTTCAGAAGATCTG

upper sequence: GRMZM2G094497_T02 (Zea mays), 3'ss of exon 12
lower sequence: EFJ11911 (Selaginella moellendorffii), 3'ss of exon 12
gtacctattatgagtccataggctttgttttcagacatgatgtgtaagatgaattgacatctactgttttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
                  |  ||  |  | ||  |||| || | |    |  |   |  ||||||| |||   | ||||||||||| |||||||| ||||| || || ||||| || ||||| |||||||| ||||| || || || || ||||| ||||||
-----------------gtgagcgattgtgtct-acatcat-tatgccgtttaacaatgtctactggttt---tgcagCTTTATGCAAACTATGCCATTGGCAAAGACGTTCAAGCGATGAAAGCTGTCGTGGGAGAAGAAGCGCTGTCATCTGAAGATCTG

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|13198699|gb|BG354501.1|BG354501
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32929245|gb|CF034057.1|CF034057
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|5915388|gb|AW053029.1|AW053029
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|31352565|gb|CD436922.1|CD436922
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|211461529|gb|FL062011.1|FL062011
EST:     AGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: AGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|6445489|gb|AW179407.1|AW179407
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAG
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAG
EST: gi|32827029|gb|CD966707.1|CD966707
EST:     CTATTGGTGAGGGCATGACACGTCGAGGCCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGC-ATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32928465|gb|CF033277.1|CF033277
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|60353112|gb|DN220085.1|DN220085
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|6342732|gb|AW165556.1|AW165556
EST:     CTATTGGTGAGGGCATGACCCGTCGAGNCCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|5901377|gb|AW042477.1|AW042477
EST:     CGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|31352616|gb|CD436973.1|CD436973
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32928932|gb|CF033744.1|CF033744
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|67022236|gb|CO450985.1|CO450985
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|37386947|gb|CF630666.1|CF630666
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|211474169|gb|FL062077.1|FL062077
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|67040204|gb|CO466459.1|CO466459
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAANGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|31352899|gb|CD437256.1|CD437256
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAGCTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32929097|gb|CF033909.1|CF033909
EST:     CTATTGGTGAGGGCAGGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|5804536|gb|AI979506.1|AI979506
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32944174|gb|CF048993.1|CF048993
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|60353085|gb|DN220058.1|DN220058
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32788398|gb|CD940634.1|CD940634
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|60358048|gb|DN225021.1|DN225021
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32838699|gb|CD978380.1|CD978380
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|60345561|gb|DN212534.1|DN212534
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|6056572|gb|AW090977.1|AW090977
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|33092363|gb|CF052357.1|CF052357
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32804255|gb|CD956491.1|CD956491
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGTAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|78026344|gb|DV494731.1|DV494731
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32928990|gb|CF033802.1|CF033802
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32944913|gb|CF049732.1|CF049732
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|31352900|gb|CD437257.1|CD437257
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|31351441|gb|CD435798.1|CD435798
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32928322|gb|CF033134.1|CF033134
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTTGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|211466584|gb|FL062035.1|FL062035
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|5871234|gb|AW017705.1|AW017705
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32799313|gb|CD951549.1|CD951549
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCAGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|60357117|gb|DN224090.1|DN224090
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|24764051|gb|CA399220.1|CA399220
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|24934300|gb|CA452518.1|CA452518
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|33101328|gb|CF061288.1|CF061288
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|60349999|gb|DN216972.1|DN216972
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|13198402|gb|BG354303.1|BG354303
EST:     GTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: GTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|213171194|gb|FM184433.1|FM184433
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|7844600|gb|AW787822.1|AW787822
EST:     ATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: ATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|211474172|gb|FL062080.1|FL062080
EST:     CGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|32802000|gb|CD954236.1|CD954236
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAAGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|60344123|gb|DN211096.1|DN211096
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|33100800|gb|CF060760.1|CF060760
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|60343460|gb|DN210433.1|DN210433
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTC
EST: gi|31351755|gb|CD436112.1|CD436112
EST:     CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAG                         CTTTATGCCAACTATGC
genomic: CTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGC

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: 457

AGTGCTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 930

AGTGCTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 725

AGTGCTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 777

AGTGCTATTGGTGAGGGCATGACACGTCGAGACCATTCGGATGTATCTAATCAGgtacctatta ... ttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttttcagacatgatgtgtaagatgaattgacatctactgttttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG
                            aattgac  putative branch site (score: 777)
                                           ttttctgttc  putative PPT
                         atgaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacctattatgagtccataggctttgttttcagacatgatgtgtaagatgaattgacatctactgttttctgttcagCTTTATGCCAACTATGCTATTGGAAAGGATGTTCAGGCCATGAAGGCTGTCGTTGGAGAGGAGGCACTCTCGTCTGAGGATCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT