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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGTAACAAGGGTGCCTTTATTCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtaccttttatgtttggagtatgctatgttatatcatgttttgtcatcctcaaaaaattaccaatatgttctttattgatttcatttatgaccgtgcatatctttcaatctgtattgttatatggggttgacatactttccttgtgtctggtttactttgttgaatatgcagc

Basic information

species Glycine max
transcript GLYMA18G12440.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G12440.1 (Glycine max), 5'ss of exon 12
lower sequence: AT2G42810.2 (Arabidopsis thaliana), 5'ss of exon 13
-TGGGTAACAAGGGTGCCTTTATTCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtaccttttatgtttggagtatgctatgttatatcatgttttgtcatcctcaaaaaattaccaatatgttctttattgatttcatttatgaccgtgcatatctttcaatctgtattgttatatggggttgacatactttccttgtgtctggtttactttgttgaatatgcagc
 ||||||| ||||| ||||| ||||| |||||||| |||||| |||| || |||||||| ||||||||||| ||||| |||    |     |    || ||  | | ||||   ||||||         || || ||     |   |||   | | || |   |  |  ||  | |  || ||   || | | || ||     |                                                
ATGGGTAATAAGGGAGCCTTCATTCGTTTTGAAGCTCCTGATATGAAGCCAAACATTGTTACATTCTCAGCAGTGgtgagtgtagtcctcttacatagcattgt-tcttatga-atgtttca-------cagaagatagttcacg-gtttgatttagactcattcaaacactcttctaattttctgatat-tgttatttcccag------------------------------------------------

upper sequence: GLYMA18G12440.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv12s0142g00720.t01 (Vitis vinifera), 5'ss of exon 6
-TGGGTAACAAGGGTGCCTTTATTCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtaccttttatgtt-tggagtatgcta-tgttatatcatgttttgtcatcct-caaaaaattaccaatatgttctttattgatttcatttatgaccgtgcatatctttcaatctgtattgttatatggggttgacatactttccttgtgtctggtttactttgttgaatatgcagc
 |||| ||||||||||| |||||||| |||||||| || ||| |||| || |||||||||||||| ||||| ||||| |||| | | | | || || |  || ||  || || ||  |||    |     |  | |   |||  ||  |||   || |   | | |||| |    |||   |  || ||                                                                  
ATGGGCAACAAGGGTGCTTTTATTCGTTTTGAAGCCCCAGATCTGAAGCCAAACATTGTCACATTTTCAGCAGTGgtgagtagcctgtgttttctgaaagatccttctgctaaattttgtcaacttggtttatagatggtta--aaagtgtaacttgtcc-tcttatttctttttgtgatgaaattgcag-----------------------------------------------------------------
















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|7925584|gb|AW831610.1|AW831610
EST:     TCGATTTGAAGCGCCTGATNTGAAACCTAGCATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|7925584|gb|AW831610.1|AW831610
EST:     TCGATTTGAAGCGCCTGATNTGAAACCTAGCATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|7925584|gb|AW831610.1|AW831610
EST:     TCGATTTGAAGCGCCTGATNTGAAACCTAGCATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|58017779|gb|CX704521.1|CX704521
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|58017779|gb|CX704521.1|CX704521
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|58017779|gb|CX704521.1|CX704521
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|22929012|gb|BU546151.1|BU546151
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|22929012|gb|BU546151.1|BU546151
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|22929012|gb|BU546151.1|BU546151
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|58024761|gb|CX711502.1|CX711502
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|58024761|gb|CX711502.1|CX711502
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|58024761|gb|CX711502.1|CX711502
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|9902697|gb|BE611665.1|BE611665
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGTG                        
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGC-G-Gtggttagtac ... aatatgcag
EST: gi|9902697|gb|BE611665.1|BE611665
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGTG                        
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGC-G-Gtggttagtac ... aatatgcag
EST: gi|23730805|gb|BU763508.1|BU763508
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|23730805|gb|BU763508.1|BU763508
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|23730805|gb|BU763508.1|BU763508
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|58021121|gb|CX707863.1|CX707863
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|58021121|gb|CX707863.1|CX707863
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|58021121|gb|CX707863.1|CX707863
EST:     TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGG                         T
genomic: TCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtac ... aatatgcagc-
EST: gi|209709468|gb|BW668384.1|BW668384
EST:     GCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGTG                        
genomic: GCCTGATTTGAAACCTAACATTGTCACATTCTCAGC-G-Gtggttagtac ... aatatgcag
EST: gi|209709468|gb|BW668384.1|BW668384
EST:     GCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGTG                        
genomic: GCCTGATTTGAAACCTAACATTGTCACATTCTCAGC-G-Gtggttagtac ... aatatgcag

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGTAACAAGGGTGCCTTTATTCGATTTGAAGCGCCTGATTTGAAACCTAACATTGTCACATTCTCAGCGGtggttagtaccttttatgtttggagtatgctatgttatatcatgttttgtcatcctcaaaaaattaccaatatgttctttattgatttcatttatgaccgtgcatatctttcaatctgtattgttatatggggttgacatactttccttgtgtctggtttactttgttgaatatgcagc

- - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - TGAAGC