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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGTACTCAAATGCTTATATGCTTGTGTATATACGTGAAAGTGACAAGGACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGGgtaagcatctgttcttatttacatttaggactccgaaagatgcaagcccagttgaatacaaacatgttttttagaatatgggtttggtgctaactcaacc...

Basic information

species Glycine max
transcript GLYMA20G11330.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 5'ss of exon 9
CAAGTACTCAAATGCTTATATGCTTGTGTATATACGTGAAAGTGACAAGGACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGGgtaagcatctgttcttatttacatttaggactccgaaagatgcaagcccagttgaatacaaacatgttttttagaatatgggtttggtgctaactcaacc-
 ||||| |||||||| || |||||||| || || ||||| ||||| ||||||||||| || || ||||| |||||||| |||||||| |  |||||||||||| |  |   ||   |||  || |      |  |  |  | |      |     ||   || ||    |      | |         |    | ||  | 
AAAGTATTCAAATGCCTACATGCTTGTCTACATCCGTGAGAGTGATAAGGACAAAATAATGTGTAATGTTGATGAGAAGGACATTGCTGAGCATTTAAGGgtatgtgttgttttgcattctcactcctccttgggccaatttcctcgataccacgattggaaaataccatcgcatgtgtcaacaca-cgtgggcccaggcc

upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 5'ss of exon 13
CAAGTACTCAAATGCTTATATGCTTGTGTATATACGTGAAAGTGACAAGGACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGGgtaagcatctgttcttatttacatttaggactccgaaagatgcaagcccagttgaatacaaacatgttttttagaatatgggtttggtgctaactcaacc
 ||| | ||||||||||| ||||||||||| || |||||||||||||  || ||||| || |||||| | ||||| || |||||  ||| |||  | | |||||   |   | | | ||    | | ||    |  |  |     |  | | ||   |  || |  |||   ||                          
TAAGCATTCAAATGCTTACATGCTTGTGTACATTCGTGAAAGTGACAGAGAAAAAATTATTTGCAATTTAGATGAAAACGACATACCAGAACACCTTAAGgtaatacttcttcccttttcttttcttgggtatcacagaactt--gttctgatgt-catgaaaacctttaccag--------------------------

upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
CAAGTACTCAAATGCTTATATGCTTGTGTATATACGTGAAAGTGACAAGGACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGGgtaagcatctgttcttatttacatttaggactccgaaagatgcaagccca-gttgaatacaaacatgttttttagaatatgggtttggtgctaactcaacc
 ||||| |||||||| || |||||||| ||||||||||| | ||||||||| ||||| || || ||||| |||||||| || ||||| |  |||||  ||||||| |   |||||  | ||| ||     ||     |  |   | |    |||        | ||  |  ||     |   |||   |   |        
AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagta---gttctggtatactttgtccccttttctatgtatcatcttgtgtttttgttggagatagtgattgattgaactgttcttttacag-------

upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G303655_T01 (Zea mays), 5'ss of exon 3
CAAGTACTCAAATGCTTATATGCTTGTGTATATACGTGAAAGTGACAAGGACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGGgtaagcatct-----gttcttatttacatttagga----ctccgaaagatgc--aagcccagttgaatacaaacatgttttttagaatatgggtttggtgctaactcaacc
 ||||| || ||||| || |||||||| ||||||||||| |||||||| || ||||| || || ||||| |||||||| ||||| || |  |||||  ||||||| |  |     |||| | | ||| ||         ||  | |  ||     |     |||||| | |   ||  |  ||  | |||   |||   |           
AAAGTATTCGAATGCCTACATGCTTGTCTATATACGTGAGAGTGACAAAGAGAAAATAATGTGTAATGTCGATGAGAAGGACATCGCTGAGCATTTGCGGgtaagtagttcggtagttcctgtatactttcccacttttctttgtatcatcttgtatttttgttgaagatagtgat--tgattgaactattcttttacag-----------

upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 13
CAAGTACTCAAATGCTTATATGCTTGTGTATATACGTGAAAGTGACAAGGACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGGgtaagcatctgttcttatttacatttagg---actccgaaagatgcaagcccagttgaatacaaacatgttttttagaatatgggtttggtgctaactcaacc
 ||||| |||||||| || ||||| |||||||||||||||||||||||||||||||| || ||||||||||||||||| |||||||| | |||| |  |||||||  |||| | |||  |  | | |     | | |   | ||          ||| || ||    |    || |    |||| ||  |  | |        
GAAGTATTCAAATGCATACATGCTGGTGTATATACGTGAAAGTGACAAGGACAAAATAATTTGCAATGTGGATGAGAAGGACATTGCTGAACATCTCCGGgtaagattctgctattacatttagtcaattttatttcttcaaatttctattt--ttggatgcatgactagagttcattccatggctt--gcaccag-------

upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S104_2V6.1 (Physcomitrella patens), 5'ss of exon 12
CAAGTACTCAAATGCTTATATGCTTGTGTATATACGTGAAAGTGACAAGGACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGGgtaagcatctgttcttatttacatttaggac----tccgaaagatgcaagcccagttgaatacaaacatgttttttagaatatgggtttggtgctaactcaacc----------------------------------------------
 || ||||||||||| || ||||| ||||| ||  | ||   ||||||||||||| | |||||||| ||||||||||||||||||||||  ||| |   |||||     |      | ||  |  | ||||    | |      |    ||  |||   |   |||  | |  || | | | || |||    || |  ||  |                                               
AAAATACTCAAATGCGTACATGCTGGTGTACATCAGAGATTCTGACAAGGACAAAGTTATATGCAACGTGGATGAGAAAGACATTGCAGAGCATCTGCAGgtaaatcctttactggagttggaagtcggacgtattgctcgttttcagggcttagtcata---aaatttttacttcaaattttgtgttcaaggccagatctgctgcaaattgacggtcacgtggttgaattccatttggtgacattgcag

upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 13
CAAGTACTCAAATGCTTATATGCTTGTGTATATACGTGAAAGTGACAAGGACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGGgtaagcatctgttcttattta--catttaggactccgaaagatgcaagcccagttgaatacaaacatgttttttagaatatgggtttggtgctaactcaacc-
 || |||||||| || || ||| | ||||||||  | ||    ||||||||||| ||  | ||||||||||||||||| || ||||||| ||||||   |||||         ||  |  |   | |||   ||   |    ||   |    | |  ||  ||    || |  || | |  | |||  |  ||  |   |   
AAAATACTCAAACGCATACATGTTGGTGTATATCAGAGAGGCCGACAAGGACAAGATTGTTTGCAATGTGGATGAGAAGGATATTGCAGAACATTTGCAGgtaatttaagaaactggtgaaactagttattcctttcaggtgtgtctgttt-gctctatgtaattcggtat--taaactcggcgttgagaactgccagtattg

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|151412634|gb|EV282446.1|EV282446
EST:     ACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGG                         GAGAGGTTGAAGAAAGAACAAGAAGAGAAAG
genomic: ACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGGgtaagcatct ... aataatgcagGAGAGGTTGAAGAAAGAACAAGAAGAGAAAG
EST: gi|254341879|gb|GR853016.1|GR853016
EST:     CAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAAGG                         GAGAGGTTGAAGAAAGAACAAGAAGAGAAAGAGCAC
genomic: CAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAA-GGgtaagcatct ... aataatgcagGAGAGGTTGAAGAAAGAACAAGAAGAGAAAGAGCAC
EST: gi|254341880|gb|GR853017.1|GR853017
EST:     ACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGG                         GAGAGGTTGAAGAAAGAACAAGAAGAGAAAGAGCAC
genomic: ACAAAATCATATGCAATGTGGATGAGAAAGACATTGCAGCACATTTAAGGgtaagcatct ... aataatgcagGAGAGGTTGAAGAAAGAACAAGAAGAGAAAGAGCAC