Skip to another splice site:
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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgacttggcccaccccatcttttcttagatattattactcttgtataattggttaattttccaattcaatagctaaggtttatatgattcattattgtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTGAATTTACTTGGTGTGAAGGGTGCAAGCAAGGAGTCACCAGGATCAAACT

Basic information

species Glycine max
transcript GLYMA02G44070.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G44070.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0122g00610.t01 (Vitis vinifera), 3'ss of exon 3
gtgacttggcccaccccatcttttcttagatattattactcttgtataattggttaattttccaattcaatagctaaggtttatatgattcattattgtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTGAATTTACTTGGTGTGAAGGGTGCAAGCAAGGAGTCACCAGGATCAAACT
 |  ||||    |            | |  |||   |  | ||  ||| ||||  || | ||   |||||   | |  | || | |||||  |  ||||     |||||||| || ||||| ||||| ||||||||| |||| |||||||||||  | ||  |||| || || |||||||||||||| |||||||||||||||||||
atatcttgag--aattggaagaaattaaagtatctgttattttaaatacttgg--aactatctttttcaaacacaagagcttgtttgatttttgtttgt---tgcagGTGGGAACAGTTGGAGGTGGGACTCAACTTCCATCTCAATCTGCTTGTCTAAACCTACTGGGCGTAAAGGGTGCAAGCAAAGAGTCACCAGGATCAAACT
















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|207730478|gb|GD705979.1|GD705979
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|15589641|gb|BI674257.1|BI674257
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|16281492|gb|BI944515.1|BI944515
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|254340230|gb|GR858355.1|GR858355
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|8402758|gb|BE058392.1|BE058392
EST:     ATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: ATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|254322673|gb|GR835495.1|GR835495
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|16278314|gb|BI942838.1|BI942838
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|16278257|gb|BI942809.1|BI942809
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTAG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|16278393|gb|BI942880.1|BI942880
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|193592236|gb|FK546504.1|FK546504
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|23057020|gb|BU577836.1|BU577836
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|192294365|gb|FG987294.1|FG987294
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCATGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|17152847|gb|BM142780.1|BM142780
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|208316281|gb|GE114007.1|GE114007
EST:     TCAATGATGGGAGGGACCCTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG
EST: gi|23731678|gb|BU763978.1|BU763978
EST:     TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAG                         GTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGTTTG
genomic: TCAATGATGGGAGGGACCTTCACATCTCAGTGACCATGCCCTCCATTGAGgtgacttggc ... gtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttaattttccaattcaatagctaaggtttatatgattcattattgtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTGAATTTACTTGGTGTGAAGGGTGCAAGCAAGGAGTCACCAGGATCAAACT
 ggttaat  putative branch site (score: 4)
                                              tgctctc  putative PPT
                           tttatatgattcatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgacttggcccaccccatcttttcttagatattattactcttgtataattggttaattttccaattcaatagctaaggtttatatgattcattattgtgctctcagGTGGGTACTGTTGGGGGTGGAACTCAACTTGCATCCCAATCTGCTTGCTTGAATTTACTTGGTGTGAAGGGTGCAAGCAAGGAGTCACCAGGATCAAACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG