Skip to another splice site:
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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aagtgatcctattttgttttctacctttttttggaggggtgtgtgtcttttcctttactctcatgaccaaatgttttttttttaaaatcttgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGAAGCATCTTCATCATTT

Basic information

species Glycine max
transcript GLYMA19G35510.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G35510.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g49150.1 (Oryza sativa), 3'ss of exon 4
aagtgatcctat-tttgttttctacctttttttggaggggtgtgtgt-cttttcctttactctcatgaccaaatgttttttttttaaaatcttgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGAAGCATCTTCATCATTT--
   | ||  | |  | | |   |   | | | |||| |      | | | |   | | |||  ||    |  |   |  | |  |    | |   |   |||||||| ||||| |||||||||||||||||||| ||||| ||||| |||||||| ||||| ||||| || || || || |||||| |     |||    |   
--tttataatgtgctcgctcattgattatgtctggaagaaacaatttgcatggtcctcacttccacattcttaccgtggtgtgctgttttatgatttcacagGTGACACATGCTGACTTCAAGAAGGCAAAGGAGAAGGTGATGTTCAAGAAGAAGGAAGGTGTGCCGGAGGGTCTTTACATGTGATGTGC--TCACTGGTCGC

upper sequence: GLYMA19G35510.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g18690.1 (Oryza sativa), 3'ss of exon 5
--------------------------------------------------------------------------------------------aagtgatcctattttgttttctacctttttttgga-ggggtgtgtgtcttttcctttactctcatgaccaaatgttttttttttaaaatcttgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGAAGCATCTTCATCATTT--
                                                                                            |  |||   |    ||   ||      | |||| | ||  ||   ||||||   |  |||    |    | || |  | || ||     ||    ||| ||||||| |||||||| ||||||||||| || || ||||| ||||| |||||||| ||||| || || ||||| || |||||||||  ||||  || || |   
gtaactcagctttgttttctcaaccagactccttgctctctagtactgttaatgttaaaactttcgagcatactaagtgccaatcctttcagatctgagtttgagctgcgctcagaacatatttgcatggaatgcaagtctttgt-tgcacttctctttttacatttgctgttctt-----ctgttgctttagGTGACACATGCCGATTTCAAGAAGGCCAAAGAGAAGGTCATGTTCAAGAAGAAGGAAGGTGTACCGGAAGGGCTTTATATGTGAGACATC--CACCACTCAT

upper sequence: GLYMA19G35510.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G104373_T01 (Zea mays), 3'ss of exon 5
------aagtgatcctattttgttttctacctttttttggaggggtgtgtgtcttttcctttactctcatgaccaaatgttttttttttaaaatcttgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGAAGCATCTTCATCATTT-
       || | |    ||||||  |   |      ||| |     | ||  |      | | | ||||||| |   | ||||| ||||     ||    | | |||| |||||||| |||||||||||||| || || ||||||||||| |||||||||||||| ||||| || || || |||||||||  | || ||| ||    
attcaccagagttaaccttttgtaatagcctgcaacttgaatacaag-gtcacagaaaatatccactcatgaactgctatttttatttt-----ctgttgcgttagGTAACGCATGCAGACTTCAAGAAGGCCAAAGAAAAGGTTATGTTCAAGAAGAAAGAAGGCGTGCCGGAGGGCCTATATATGTGAGAC-TCATCAGCAGCGC

upper sequence: GLYMA19G35510.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
aagtgatcctattttgttttctacctttttttggaggggtgtgtgtcttttcctttactctcatgaccaaatgttttttttttaaaatcttgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGA--AGCATCTTCATCATTT----------------------------------
                               |  ||   |  |  |||  |    | ||   ||   |  |||||||| ||||       | | |  |||||||| ||||| || ||||||||||||||||| ||||| ||||  |||||||| ||||| || || || || || || ||||    |   | ||||||||                                    
------------------------------atatagcacttcg-atctgattaggttctgagatttgctgatgtttttgttttggg----tacacc-caggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC

upper sequence: GLYMA19G35510.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G095593_T01 (Zea mays), 3'ss of exon 4
-aagtgatcctattttgttttctacctttttttggaggggtgtgtgtcttttcctttactctc----atgaccaaatgttttttttttaaaatcttgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGA--AGCATCTTCATCATTT
    |   | ||   |   |      | |  |||||     |    ||  |    |||   ||    ||   |  |||||||| ||||       | | |  |||||||| ||||| || ||||||||||||||||| ||||| ||||  |||||||| ||||| || || || || || || ||||    |   | ||||||||  
tccatttgcatagcataactgtcttgtctacttggaatatagcacttcgatctgattaggttctgagatttgctgatgtttttgttttggg----tacacc-cagGTGACCCATGCAGATTTCAAGAAGGCAAAGGAGAAGGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCAT--

upper sequence: GLYMA19G35510.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G29040.1 (Arabidopsis thaliana), 3'ss of exon 5
-aagtgatcct-----attttgttttc-tacctttttttggaggggtgtgtgtcttttcctttactctcatgaccaaatgttttttttttaaaatcttgctc-ttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGAAGCATCTTCATCATTT--
  || ||  ||     |||| |||     || |        |           |  ||     | |   |    |  | | |  | | || ||||     |  |||||||||| ||| | || |||||||| |||||||| ||||||||||| |||||||||||||| || || ||||| || || |||| ||  ||  | ||||| |  
gtagagactcttaaccatttagttcaagcacatacaaacacacacacacacaccacttgggcaattactagccactgacgctaatgtgtttaaattggatttgttcagGTGACACATCCTGATTTCAAGAAAGCAAAGGAGAAGGTTATGTTCAAGAAGAAAGAAGGCGTCCCTGAAGGCCTCTACATGTAAA--ATTATAATCATATCG

upper sequence: GLYMA19G35510.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G20140.1 (Arabidopsis thaliana), 3'ss of exon 5
aagtgatcctattttgttttctacctttttttggaggggtgtgtgtcttttcctttactctcatgaccaaatgttttttttttaaaatcttgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGAAGCATCTTCATCATTT
  || |   |  | ||  ||||  |   ||        |   |     |||   | | | |  |    ||     ||| |||     |||     || ||||||||||||  |||||||||||||| ||||| ||||||||||| |||||||||||||| || || ||||| || || |||||||  ||   || |   |
--gtaaggattctctggcttctcaccacttgattcatcgaacgcaatctttgaataattttact--ttaa---cctttgtttggtcttctattggtttagGTGACGCATGTGGACTTCAAGAAGGCGAAGGAGAAGGTTATGTTCAAGAAGAAAGAAGGAGTTCCTGAAGGTCTTTACATGTGAATGATGCACAACGACT

upper sequence: GLYMA19G35510.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0005g05160.t01 (Vitis vinifera), 3'ss of exon 5
-aagtgatcctattttgttttctacctttttttggaggggtgtgtgtcttttcct-ttactctcatgaccaaatgttttttttttaaaatcttgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGAAGCATCTTCATCATTT
  |   |    | |   ||  ||  ||   | |     | | |  |||   |      |   ||   |  |||  |||   |  | ||||  ||  ||||||||||| ||||  |||||||||||||||||||| ||||| ||||| ||||||||||||||||||||||||||||| || |||||||    || |  ||| |
ggaagaagttgaatgcattacctgactacatgtttgctgattttagtcacctaggaccaggatcccaattaaa--tttgactggttaaatactgtgcttcagGTGACTCATGTAGACTTCAAGAAGGCAAAGGAGAAGGTGATGTTCAAGAAGAAAGAAGGGGTGCCAGAAGGACTTTACATGTGAAAACACTGCTACATAT

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|9820245|gb|BE555755.1|BE555755
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|10236888|gb|BE805776.1|BE805776
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|193416866|gb|FK383678.1|FK383678
EST:     GCCGGATGAAG                         GTTGTACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGA
genomic: GCCGGATGAAGgttagtagta ... tgctcttcagG-TG-ACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGA
EST: gi|15203398|gb|BI426166.1|BI426166
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|254326968|gb|GR836577.1|GR836577
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|254332564|gb|GR846502.1|GR846502
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCA-GAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|4299912|gb|AI442972.1|AI442972
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|192315807|gb|FK008517.1|FK008517
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|209716529|gb|BW676953.1|BW676953
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|192308141|gb|FK000469.1|FK000469
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|58019272|gb|CX706014.1|CX706014
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|11274332|gb|BF324700.1|BF324700
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTAC-A-A-CGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|192315806|gb|FK008516.1|FK008516
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|11413792|gb|BF425803.1|BF425803
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTAC-A-A-CGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|254332565|gb|GR846503.1|GR846503
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|214007596|gb|DB987383.1|DB987383
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
EST: gi|6719311|gb|AW306958.1|AW306958
EST:     CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAG                         GTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG
genomic: CAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagta ... tgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttttcctttactctcatgaccaaatgttttttttttaaaatcttgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGAAGCATCTTCATCATTT
                                          tcttgctcttc  CT-rich tract
                       aaatgtttttttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aagtgatcctattttgttttctacctttttttggaggggtgtgtgtcttttcctttactctcatgaccaaatgttttttttttaaaatcttgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGAAGCATCTTCATCATTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - ctacctt
- - - - - - - - - - - - - - - - ggagggg