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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTGGCGTTTCCCTCTTCTTAGGTTTGTCCATTCCTGAGTATTTCAGAGAATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcattgttttaaacttttatctctcacatagttaacatgaatatttaaggacaaaacttagatgtagtttcaatatataacataaatacaactt...

Basic information

species Glycine max
transcript GLYMA08G12360.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G12360.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv10s0003g01460.t01 (Vitis vinifera), 5'ss of exon 13
TTGTGGCGTTTCCCTCTTCTTAGGTTTGTCCATTCCTGAGTATTTCAGAGAATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcattgttttaaacttttatctctcacatagttaacatgaatatttaaggacaaaacttagatgtagtttcaatatataacataaatacaactt
    || ||  |  ||||| | |||||||||||||||||||||||||| ||||||||       ||| ||||||| ||||||||||| |  |||||||||||||||   |  |  | |  || | | |||   |  || ||  |  ||   |  |        |    | |  ||||| | |   |  |  || ||    
CACGGGTGTGGCTTTCTTCCTGGGTTTGTCCATTCCTGAGTATTTCAGGGAATACACCTCTGCTGCCCTTCATGGTCCTGCTCATACAAGGGCTGGATGGgtgagtctttcctagtcagtttat-tatctgctaacgtcaaactatattgctgggtggtgggttggattttcatttcatttt--tatttccatgcag---
















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|14516468|gb|BI095140.1|BI095140
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
EST: gi|58017520|gb|CX704262.1|CX704262
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
EST: gi|31456971|gb|CD398999.1|CD398999
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCCGGATGG                         TTCAATGATTTCCGTAATACCATGATTCTTTTCTTCCCCAACGGTTGCATT
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCAT-ATTCTTTTCTTCCCCAACGGTTGCATT
EST: gi|58014211|gb|CX700953.1|CX700953
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
EST: gi|31473755|gb|CD415783.1|CD415783
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCCGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
EST: gi|58024713|gb|CX711454.1|CX711454
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
EST: gi|31463891|gb|CD405919.1|CD405919
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCCGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
EST: gi|193381465|gb|FK347518.1|FK347518
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCC-AACCGGTTGCATT
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAAC-GGTTGCATT
EST: gi|14516469|gb|BI095141.1|BI095141
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
EST: gi|5761125|gb|AI966488.1|AI966488
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
EST: gi|9984297|gb|BE658405.1|BE658405
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
EST: gi|31473156|gb|CD415184.1|CD415184
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCCGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
EST: gi|58018670|gb|CX705412.1|CX705412
EST:     AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
EST: gi|193687205|gb|FK630432.1|FK630432
EST:     AATGCTGGATGG                         TTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG
genomic: AATGCTGGATGGgtgagttcat ... ggttttgcagTTCAATGATTTCCTTAATACCATATTCTTTTCTTCCCCAACGGTTGCATTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGTGGCGTTTCCCTCTTCTTAGGTTTGTCCATTCCTGAGTATTTCAGAGAATACACTATCAGGGCCTTTCATGGCCCTGCTCATACTAATGCTGGATGGgtgagttcattgttttaaacttttatctctcacatagttaacatgaatatttaaggacaaaacttagatgtagtttcaatatataacataaatacaactt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggacaaaa