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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCCTGATGTATGGGAGGATGAACTTCACAATGTTGTACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATGgtatgcattccccaacaaataaccccttttggtaaagttacgatttctcaatcaaataacctttgctatatgctcctgtag

Basic information

species Glycine max
transcript GLYMA01G09400.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G09400.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv01s0010g00740.t01 (Vitis vinifera), 5'ss of exon 8
CTGCCTGATGTATGGGAGGATGAACTTCACAATGTTGTACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATGgtat---------gcattccccaacaaataaccccttttggtaaagttacgatttctcaatcaaataacctttgctatatgctcctgtag
|| ||| ||||||||||||||||||| ||||||||||| || ||| |||||   ||   ||||||||| |  |||||||||||  |||||||         |  ||| |    ||| |||  || |    ||    | | |  ||  | | || ||         |||||   || ||
CTACCTAATGTATGGGAGGATGAACTCCACAATGTTGTTCAAATGGGCTTTAGTACTGGTGCTCCCCTCAACAGCCAAGATTTAAATGgtataactagttggttttcacgtgtaaacaactgctatgaaaaattccatgttcgcttgagctaacaatgaagttgttatgcatttgcag
















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|5666780|gb|AI930816.1|AI930816
EST:     ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATG                         GTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA
genomic: ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATGgtatgcattc ... gctcctgtagGTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA
EST: gi|6341849|gb|AW164673.1|AW164673
EST:     ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATG                         GTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA
genomic: ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATGgtatgcattc ... gctcctgtagGTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA
EST: gi|7796861|gb|AW782255.1|AW782255
EST:     AGCCAAGATTTTGATG                         GTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA
genomic: AGCCAAGATTTTGATGgtatgcattc ... gctcctgtagGTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA
EST: gi|22927847|gb|BU544986.1|BU544986
EST:     ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATG                         GTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA
genomic: ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATGgtatgcattc ... gctcctgtagGTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA
EST: gi|193340719|gb|FK308340.1|FK308340
EST:     ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATG                         GTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGTATCTTTAGTCTTC
genomic: ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATGgtatgcattc ... gctcctgtagGTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTG-ATCTTTAGTCTTC
EST: gi|22926926|gb|BU544065.1|BU544065
EST:     ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATG                         GTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA
genomic: ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATGgtatgcattc ... gctcctgtagGTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA
EST: gi|15203048|gb|BI425816.1|BI425816
EST:     ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATG                         GTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA
genomic: ACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATGgtatgcattc ... gctcctgtagGTACTGGGCCAGCAAGTCAGATGAAAGTTGAACTTTGATCTTTAGTCTTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGCCTGATGTATGGGAGGATGAACTTCACAATGTTGTACAGATGAGCTTTGCAACAACTGCTCCCCTTACTAGCCAAGATTTTGATGgtatgcattccccaacaaataaccccttttggtaaagttacgatttctcaatcaaataacctttgctatatgctcctgtag

- - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - GAGCTT