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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTGATCCATTGGTCAATCTGATGAAAGTTGAGAAAGTTCCCGATTCTACATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgcttgacattctttcaatgtcaggagttagatgcttttatctatccatgcatcactcgtgtgttacctttccgtgtgcatgtatctatctatttatattttagtgtagcatcatgcattagaaaaattagtttagtttttgaacctaatgtatgtgattaaatgtacag

Basic information

species Glycine max
transcript GLYMA07G00420.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G00420.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g11050.1 (Oryza sativa), 5'ss of exon 3
AGTTGATCCATTGGTCAATCTGATGAAAGTTGAGAAAGTTCCCGATTCTACATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgcttgacattctttcaatgtcaggagttagatgc-ttttatctatccatgcatcactcgtgtg-ttacctttccgtgtgcatgtatctatctatttatattttagtgtagcatcatgcattagaaaaattagtttagtttttgaacctaatgtatgtgattaaatgtacag
||||||||| ||||||||||| |||||||||||||| ||||| |||||||| ||||| |||||||| ||| | || |||||||| ||||| || ||||||||   |||    | ||  |||||||||       | ||||| |   || || |      | |||| ||   | | ||||  |                                                                                                
AGTTGATCCGTTGGTCAATCTTATGAAAGTTGAGAAGGTTCCTGATTCTACTTATGATATGATTGGAGGTCTTGATCAGCAAATCAAAGAGATCAAAGAGgt---ttgt---atataatttcaatgtacta---ttgatgcatcgcatatagcacattctgactcatgaactcaacttttag------------------------------------------------------------------------------------------------

upper sequence: GLYMA07G00420.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G137528_T01 (Zea mays), 5'ss of exon 3
AGTTGATCCATTGGTCAATCTGATGAAAGTTGAGAAAGTTCCCGATTCTACATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgt--actttgcttgacattctttcaatgtcaggagttagatgcttttatctatccatgcatcactcgtgtgttacctttccgtgtgcatgtatctatctatttatattttagtgtagcatcatgcattagaaaaattagtttagtttttgaacctaatgtatgtgattaaatgtacag
||||||||||||||||||||| |||||||||||||| ||||| |||||||||||||| |||||||| ||  | ||||||||||||||||| || ||||||||    ||||    | | |     |    ||  |  |  |   | | || | |  |  || |  ||                                                                                                                
AGTTGATCCATTGGTCAATCTCATGAAAGTTGAGAAGGTTCCTGATTCTACATATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttgaactaaaatgcagtatcaccaaaatatgcacattctgatttgtgaacacaactttcag--------------------------------------------------------------------------------------------------------------

upper sequence: GLYMA07G00420.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G107362_T04 (Zea mays), 5'ss of exon 3
AGTTGATCCATTGGTCAATCTGATGAAAGTTGAGAAAGTTCCCGATTCTACATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgt--actttgcttgacattctttcaatgtcaggagttagatgcttttatctatccatgcatcactcgtgtgttacctttccgtgtgcatgtatctatctatttatattttagtgtagcatcatgcattagaaaaattagtttagtttttgaacctaatgtatgtgattaaatgtacag
||||||||||||||||||||| |||||||||||||| ||||| |||||||| ||||| |||||||| ||  | ||||||||||||||||| || ||||||||    ||||    | |           | |  |  |  |   | | || | |  |  || |  ||                                                                                                                
AGTTGATCCATTGGTCAATCTCATGAAAGTTGAGAAGGTTCCGGATTCTACCTATGATATGATTGGAGGCCTTGACCAGCAAATTAAAGAGATCAAAGAGgtttgttttgaactaaaaagcactgtcattaaaatatgcacattctgatttgtgaactcaactttcag--------------------------------------------------------------------------------------------------------------

upper sequence: GLYMA07G00420.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G20000.1 (Arabidopsis thaliana), 5'ss of exon 3
AGTTGATCCATTGGTCAATCTGATGAAAGTTGAGAAAGTTCCCGATTCTACATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgta--ctttgcttgacattctttcaatgtcaggagttagatgcttttatctatccatgcatcactcgtgtgttacctttccgtgtgcatgtatctatctatttatattttagtgtagcatcatgcattagaaaaattagtttagtttttgaacctaatgtatgtgattaaatgtacag
||| ||||| ||||| || || |||||||||||||| ||||| || || ||||||||||||||||||||| | ||||||||||| || |||||||| ||||||  | | |    | |  |   | ||   |  ||| |  || ||| ||   |  |        |  | |  || |||| |  ||  ||                                                                                         
AGTAGATCCCTTGGTTAACCTTATGAAAGTTGAGAAGGTTCCAGACTCCACATATGACATGATTGGTGGTCTTGACCAGCAAATCAAGGAAATAAAGGAGgtatgcatagtgaaagaaacaaacgatactaaaagtcac-tggtttcatgcttttaaat----tttatataatatctttactggtttatcag--------------------------------------------------------------------------------------

upper sequence: GLYMA07G00420.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G19990.1 (Arabidopsis thaliana), 5'ss of exon 3
AGTTGATCCATTGGTCAATCTGATGAAAGTTGAGAAAGTTCCCGATTCTACATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtac-tttgcttgacattctttcaatgtcaggagttag-atgcttttatctatccatgcatcactcgtgtgttacctttccgtgtgcatgtatctatctatttatattttagtgtagcatcatgcattagaaaaattagtttagtttttgaacctaatgtatgtgattaaatgtacag
||| ||||| ||||| || || |||||||||||||| ||||| || || || |||||||||||||||||| | |||||||| ||||| |||||||| ||||||   ||  |  |        | |    |  ||| |  |   | ||  |||||    | ||  | || |  | |||||   |||  || ||  ||||||| | | || | || || ||                                                           
AGTAGATCCCTTGGTTAACCTTATGAAAGTTGAGAAGGTTCCAGACTCCACCTATGACATGATTGGTGGTCTTGACCAGCAGATTAAGGAAATAAAGGAGgtatgcttagtgaatgagaaaccgaaactaaaagtcactacagtattggctatct---cctctgttgtttcat-ccttttaatgtttatataa-tatctatatcttttctggtttatcag----------------------------------------------------------

upper sequence: GLYMA07G00420.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv04s0008g04690.t01 (Vitis vinifera), 5'ss of exon 3
AGTTGATCCATTGGTCAATCTGATGAAAGTTGAGAAAGTTCCCGATTCTACATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgcttgacattctttcaatgtcaggagttagatgcttttatctatccatgcatcactcgtgtgttacctttccgtgtgcatgtatctatctatttatattttagtgtagcatcatgcattagaaaaattagtttagtttttgaacctaatgtatgtgattaaatgtacag
||| |||||| |||| || || ||||||||||| |||||||| |||||||||||||| |||||||||||| | || |||||||| ||||| ||||| |||||    |   ||| |   | |         || |||  || |||  |  |   || | ||  || | || |  |||      | ||                                                                                          
AGTAGATCCACTGGTAAACCTTATGAAAGTTGAAAAAGTTCCGGATTCTACATATGATATGATTGGTGGTCTTGATCAGCAAATCAAAGAGATAAAGGAGgttagctatatgagagcttcttc------tgatttatttgttttggttga--aatccttctgtcttatgctgtcttaaacccttcag-----------------------------------------------------------------------------------------

upper sequence: GLYMA07G00420.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0002g05800.t01 (Vitis vinifera), 5'ss of exon 3
AGTTGATCCATTGGTCAATCTGATGAAAGTTGAGAAAGTTCCCGATTCTACATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgcttgac-attctttcaatgtcaggagttagatgcttttatctatccatgcatcactcgtgtgttacctttccgtgtgcatgtatctatctatttatattttagtgtagcatcatgcattagaaaaat-tagtttagtttttgaacctaatgtatgtgat--taaatgtacag
||| |||||  | || || || ||||||||||| |||||||| || || |||||||||||||| |||||| | |||||||||||||||||||||||||||||   |   ||||| | |  ||  |||| |    ||   |  | ||||        ||| ||||  |   ||   ||    |  |  |  |  | |  || ||||  | ||    | |||    |||   |   | |  ||| | |||   ||||  | | |||  |  | |   | |||
AGTAGATCCCCTCGTAAACCTTATGAAAGTTGAAAAAGTTCCAGACTCCACATATGACATGATCGGTGGTCTTGACCAGCAAATTAAAGAAATAAAAGAGgtttgtcctttgaccaattcttacatgttat---ttcattattattattaccattagcagcacttttaccttgatttaagttaggatttaaattcttaatctatagataagaaaggtatctcagatttttattttctcattttggttt---accttgtttttgttgtcttgatctttcag

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|37996482|gb|CF808071.1|CF808071
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|19269340|gb|BM885596.1|BM885596
EST:     TATGACATGATTGGGGGGTTTAGACAA-CAAATTAAAGAAAATAAA-GAG                         GGCATTGAGCTACC
genomic: TATGACATGATTGGTGG-TTTAGACCAGCAAATTAAAGAAA-TAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACC
EST: gi|6912974|gb|AW394562.1|AW394562
EST:     ATATGACATTGATTG-TGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACAT
genomic: ATATGACAT-GATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACAT
EST: gi|151403300|gb|EV273110.1|EV273110
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|37995024|gb|CF806613.1|CF806613
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|208195518|gb|GD993449.1|GD993449
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAA-GAG                         GTCATTGAGCTACCAATCAAACAT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACAT
EST: gi|213617885|gb|DB957366.1|DB957366
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATC
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATC
EST: gi|298197166|gb|HO041909.1|HO041909
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTA
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTA
EST: gi|18732952|gb|BM527342.1|BM527342
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|213599336|gb|DB972278.1|DB972278
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATC
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATC
EST: gi|15589715|gb|BI674331.1|BI674331
EST:     AAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: AAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|37997219|gb|CF808808.1|CF808808
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|16281256|gb|BI944393.1|BI944393
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|213587656|gb|DB971379.1|DB971379
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTG
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTG
EST: gi|213618287|gb|DB973057.1|DB973057
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTG
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTG
EST: gi|120534038|gb|EH262171.1|EH262171
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|18039807|gb|BM308101.1|BM308101
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|16281818|gb|BI944685.1|BI944685
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|18041169|gb|BM309454.1|BM309454
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTG
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTG
EST: gi|37995944|gb|CF807533.1|CF807533
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|19052933|gb|BM731600.1|BM731600
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|193689693|gb|FK632268.1|FK632268
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
EST: gi|37995965|gb|CF807554.1|CF807554
EST:     CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAG                         GTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT
genomic: CATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgct ... aaatgtacagGTCATTGAGCTACCAATCAAACATCCTGAGCTGTTTGAAAGTCTTGGAATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTTGATCCATTGGTCAATCTGATGAAAGTTGAGAAAGTTCCCGATTCTACATATGACATGATTGGTGGTTTAGACCAGCAAATTAAAGAAATAAAAGAGgtactttgcttgacattctttcaatgtcaggagttagatgcttttatctatccatgcatcactcgtgtgttacctttccgtgtgcatgtatctatctatttatattttagtgtagcatcatgcattagaaaaattagtttagtttttgaacctaatgtatgtgattaaatgtacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA