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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacaatatttaccgtgcattttctatgattgttgcatagaacagcttgtgtcttgtttctgtatgagtttagtttgacaaggatattttgacctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG

Basic information

species Zea mays
transcript GRMZM2G171604_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171604_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g10640.1 (Oryza sativa), 3'ss of exon 7
--cacaatatttaccgtgcattttctatgattgttgcatagaacagcttgtgtcttgtttctgtatgagtttagtttgacaaggatattttgacctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG
     | | ||    ||    ||| | || |       || ||    |  || |||| |  || |||| || |  |||||||| |  ||||  | | ||||||| || ||||||||||| || ||| ||||||||||||||||||||||||| ||||||||||||||| |||||||||||||||| ||||||||||| || |
tggttactcttgtttgtatggtttttttggt-accatgtacaatgattgctg-cttgatgatgcatgatttcatcttgacaagaacttttttgcttaaacagGTGAAAATGATCATGGCTACCAATAGACCTGATGTTCTGGACCCTGCGCTACTGCGTCCTGGACGTCTAGACAGGAAGATTGAGATTCCGCTACCAAATG

upper sequence: GRMZM2G171604_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S91_182V6.1 (Physcomitrella patens), 3'ss of exon 7
--------------------cacaatatttaccgt-gcattttctatgattgttgcatagaacagcttgtgtcttgtttctgtatgagtttagtttgacaaggatattttgacctga----acagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG
                     |   || | |   | |||    ||||| ||  |   |  ||    ||||  | ||  |       | | |  | |  ||    |    ||  | ||    ||||||||||||||||||||| || ||||||||||||||||| ||||||||  | || || || || ||||||||  | |||||||||||||| ||||| || |
gtgtgttaagattctgaatctatcctagtaataatagcagacactatggttactc--tgaaattttttgtcacgtgcatggcagccaatatcttgtctcatttttcacatgtaccgaggatacagGTAAAGATGATCATGGCAACCAATCGACCTGATGTTCTTGACCCTGCATTGCTCCGACCCGGCCGTTTAGATCGAAAGATTGAAATTCCACTACCAAATG

upper sequence: GRMZM2G171604_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S47_46V6.2 (Physcomitrella patens), 3'ss of exon 7
--------------------------------------cacaatatttaccgtgcattttctatgattgttgcata-gaacagcttgtgtctt----gtttctgtatgagtttagtttgacaaggatattttgacctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG
                                      |      ||| | |   || | | |  | |  |  ||| |||   | |||||  |    | |||| |||    ||   || ||| ||| || | ||      |||||||||||||| |||||||| ||||| ||||||||||| || |||||  | || || ||||| ||||| ||  | || ||||||||||| || || || |
gtactcttgactcttgaaaccattctggtattcattggctttggcttttctgctgatctgcaagaagttgtatatatgaatcacgtgtgtgctagccgattctttatctccttg--tttacatgga-atatggat----gcagGTAAAGATGATAATGGCCACTAATCGGCCTGATGTTCTTGATCCTGCTTTGCTCCGGCCTGGCCGTTTGGATCGAAAAATTGAAATTCCACTGCCTAATG

upper sequence: GRMZM2G171604_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S13_419V6.1 (Physcomitrella patens), 3'ss of exon 7
cacaatatttaccgtgcattttctatgattgttgcatagaacagcttgtg-tcttgtttctgtatgagtttagtttgacaag----gatattttgacctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG
     ||      |   | ||||| | | ||   | | |      | ||| || |   | |  | ||       |||| |       | || ||| | | |  ||||||||||||||||||| || || || || |||||||| |||||||| || || || ||||| ||||| ||  | |||||||||||||| ||||| || |
----gtagacctggaaaaatttctgtcaatgccacgttgccataatagtgatcatagatttcgaggaaacaccgttgatagttgccaacatcttgtcatta-tagGTAAAGATGATCATGGCAACCAACCGGCCAGATGTTCTTGACCCTGCTCTTCTACGACCTGGTCGTTTGGATCGAAAGATTGAAATTCCACTACCAAATG

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|6056657|gb|AW091062.1|AW091062
EST:     GATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: GATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|5846837|gb|AI999920.1|AI999920
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|31357228|gb|CD441585.1|CD441585
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211475169|gb|FL103102.1|FL103102
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|60352414|gb|DN219387.1|DN219387
EST:     GAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: GAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211472644|gb|FL103081.1|FL103081
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211472649|gb|FL103086.1|FL103086
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|108953700|gb|EC364849.1|EC364849
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211472653|gb|FL103090.1|FL103090
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211475162|gb|FL103095.1|FL103095
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211472645|gb|FL103082.1|FL103082
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211475164|gb|FL103097.1|FL103097
EST:     CGTTGATGGAACTCCTTAATCAATTANACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211475161|gb|FL103094.1|FL103094
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211286434|gb|FL421551.1|FL421551
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211475163|gb|FL103096.1|FL103096
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGANCTCGGAAAG                         GTAAAGATGATCATGNCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211475167|gb|FL103100.1|FL103100
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|148942357|gb|EC887375.2|EC887375
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|60394885|gb|DN227754.1|DN227754
EST:     ATCAATTAGACGGTTTGGATGAGCTCGGAAAG                         GTAAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCT
genomic: ATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGT-AAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCT
EST: gi|211475172|gb|FL103105.1|FL103105
EST:     CGTTGATGGAACTCCTTAATCAATTANACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211472651|gb|FL103088.1|FL103088
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211475168|gb|FL103101.1|FL103101
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|5325115|gb|AI783306.1|AI783306
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|67023560|gb|CO452309.1|CO452309
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|60343585|gb|DN210558.1|DN210558
EST:     CAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211475159|gb|FL103092.1|FL103092
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211475165|gb|FL103098.1|FL103098
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211472648|gb|FL103085.1|FL103085
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211472650|gb|FL103087.1|FL103087
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|5325025|gb|AI783216.1|AI783216
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211350465|gb|FL030236.1|FL030236
EST:     CAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211472646|gb|FL103083.1|FL103083
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|93284399|gb|EB676663.1|EB676663
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211472652|gb|FL103089.1|FL103089
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|149112654|gb|EE191389.2|EE191389
EST:     GGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: GGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|67024916|gb|CO453665.1|CO453665
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|211475171|gb|FL103104.1|FL103104
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
EST: gi|149111230|gb|EE294728.2|EE294728
EST:     CGTTGATGGAACTCCTTAATCAATTAGACGTTTTTGATGAGCTCGGAAAG                         GTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC
genomic: CGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTC

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: 47 (upstream exon), 49 (downstream exon)
Score: 265

TGGGCGAAGATTCAGTGAGGGAACTAGTGCTGATCGTGAGATCCAGCGGACGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 236

TGGGCGAAGATTCAGTGAGGGAACTAGTGCTGATCGTGAGATCCAGCGGACGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 251

TGGGCGAAGATTCAGTGAGGGAACTAGTGCTGATCGTGAGATCCAGCGGACGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 177

TGGGCGAAGATTCAGTGAGGGAACTAGTGCTGATCGTGAGATCCAGCGGACGTTGATGGAACTCCTTAATCAATTAGACGGTTTTGATGAGCTCGGAAAGgtaaatttgt ... acctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgtcttgtttctgtatgagtttagtttgacaaggatattttgacctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG
                                        ttttgac  putative branch site (score: 177)
                                     atattttga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cacaatatttaccgtgcattttctatgattgttgcatagaacagcttgtgtcttgtttctgtatgagtttagtttgacaaggatattttgacctgaacagGTAAAGATGATCATGGCCACGAATCGACCTGATGTTCTGGACCCTGCGCTCCTGCGTCCTGGACGTTTAGACAGGAAGATTGAAATTCCGCTACCCAACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - -gtgcatt
- - - - - - - - - - - - - - -tgttgca
- - - - - - - - - - - - - - - - - - - - - -gcttgtg