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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGTCATTGGAATGGATGTTGCAGCTTCTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctcttttagcttatttctgctactgttagtctaattggaaagtgataagaaacagatatctatttacaggcaaatgagaaaaatccccaattgga...

Basic information

species Glycine max
transcript GLYMA19G37520.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G37520.1 (Glycine max), 5'ss of exon 11
lower sequence: PP1S1_526V6.1 (Physcomitrella patens), 5'ss of exon 11
GTTGTCATTGGAATGGATGTTGCAGCTTCTGAATTCTACAA---GGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctcttttagcttatttctgcta-ctgttagtctaattggaaagtgataagaaacagatatctatttacaggcaaatgagaaaaatc--cccaattgga
|| || || |||||||| |||||||| |||||||| |||||   | | |||||    ||||| |||||||||||||||||||||||         | |||    |  | || |  ||  |||| ||     ||    | ||||   |   ||     |   |   || | |     | | ||  
GTGGTGATCGGAATGGACGTTGCAGCCTCTGAATTTTACAACGAGAAGGACAAGTTGTACGACTTGAACTTCAAGGAAGATgtaagtatggc--acctatcaaggaaatctttctgtggaattcgattactatttttaccagaaggcacgttgtttactggtttcaagatttgtttcgactgt-
















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|151393954|gb|EV263825.1|EV263825
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|7591405|gb|AW707139.1|AW707139
EST:     CTGAATTCTACANGGGAGACAANACATACGATTTGAACTTCAAGGAAGAT                         NACAATGATGGCTCC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCC
EST: gi|254344482|gb|GR851179.1|GR851179
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|254320729|gb|GR827178.1|GR827178
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|7589135|gb|AW704915.1|AW704915
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|209725451|gb|BW658304.1|BW658304
EST:     AACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: AACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|254320730|gb|GR827179.1|GR827179
EST:     GAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: GAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|16346691|gb|BI972286.1|BI972286
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|17021632|gb|BM092666.1|BM092666
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|207780537|gb|GD750834.1|GD750834
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGA
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGA
EST: gi|58024814|gb|CX711555.1|CX711555
EST:     AAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: AAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|23063689|gb|BU578600.1|BU578600
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|22522608|gb|BU081419.1|BU081419
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|208194893|gb|GD993090.1|GD993090
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|7639418|gb|AW733741.1|AW733741
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|18039384|gb|BM307678.1|BM307678
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|4297320|gb|AI442601.1|AI442601
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|151406763|gb|EV276578.1|EV276578
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCTCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTA
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTC-CCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTA
EST: gi|58021795|gb|CX708536.1|CX708536
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|7028185|gb|AW457968.1|AW457968
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|5057948|gb|AI736424.1|AI736424
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|13252038|gb|BG362941.1|BG362941
EST:     GAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: GAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
EST: gi|24137025|gb|BU927535.1|BU927535
EST:     CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGAT                         AACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC
genomic: CTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctctt ... tgacctgcagAACAATGATGGCTCCCAGAGGATCTCTGGAGATGCTTTGAAAGATCTGTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGTCATTGGAATGGATGTTGCAGCTTCTGAATTCTACAAGGAAGACAAAACATACGATTTGAACTTCAAGGAAGATgtaagctcttttagcttatttctgctactgttagtctaattggaaagtgataagaaacagatatctatttacaggcaaatgagaaaaatccccaattgga

- - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccccaa