Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattggtgaacttgatgtatgagaaaactgcatttggaaatacttagtatttggaaattaatgatattggttatttttctgaccttccgcagCTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTATGGTGATATTATTAGTGACCTTTGTGCTGGCTTGGTTGGGGGATTGGGTT

Basic information

species Glycine max
transcript GLYMA13G20790.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G20790.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g16900.3 (Oryza sativa), 3'ss of exon 6
--------------------------------------------------------------------------gtaatat-tggtgaacttgatgtatgagaa-------aactgcatt-tggaaatacttagtatt----tgga-----aattaatgatattggttattttt-----ctgaccttccgcagCTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTATGGTGATATTATTAGTGACCTTTGTGCTGGCTTGGTTGGGGGATTGGGTT
                                                                           | || | || |  || |||   |||  ||       |  || ||| | |  |    || |  |    ||||     ||||||||| |    | |||| |      || ||    ||||||||||||||||||||  ||||| |||||||| |||||||| || ||||||||||||||||||||||| |||||||||||  || |||| || ||||| |
gtatgttgttctgctgataccaaaacctgtgctttgtttggtgttaatgttgaagcattcttcacactggtctgatgatctctgatcgacctgagaaatgcaaattatcctatttgtattctagccacttctattgctgtcctggacagttaattaatgacaccattgatttgtgaacattgtccccttgcagCTTGTGAAGAATCCTGGTCTTTTTGATGTACTGGTGATGCCAAATCTTTATGGTGATATTATTAGTGATCTTTGTGCTGGTCTGATTGGAGGCTTGGGCT

upper sequence: GLYMA13G20790.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G404855_T01 (Zea mays), 3'ss of exon 5
-----------------------------------------------------gtaatattggtgaacttgatgtatgagaaaactgcatttggaaata-----cttagtatttggaaat-taatgatattggt-tattt--ttctgacct-------tccgcagCTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTATGGTGATATTATTAGTGACCTTTGTGCTGGCTTGGTTGGGGGATTGGGTT
                                                      || |  |||    | ||| | || ||  |     | |   || ||     |||| ||||   |  | |  ||||  || | ||  |  |||||| ||        |  |||||||||||||||||||  ||||| |||||| |||||||||| ||||| |||||||| || ||||| || || |||||||| ||| ||||||| |||||  
gtatgttctctcagctgaaagtattcatttttctgtcaattgttgttgtgctcttagtgatggcctgcctgaagcatcaggcagtgctaatatcaattatttttcttactattataagctgtgctgatgctgatgtaactcattctgaactgcatttgcctccagCTTGTGAAGAATCCTGGTCTTTTTGATGTATTAGTGATGCCAAACCTCTATGGTGACATCATTAGCGATCTATGTGCTGGTTTGATTGGGGGCTTGGGCC

upper sequence: GLYMA13G20790.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G120857_T02 (Zea mays), 3'ss of exon 5
-----------------gtaatattggtgaacttgatgtatgagaaaactgcatttggaaata-----cttagtatttggaaatt----aatgatattggttatttttctgaccttccg-cagCTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTATGGTGATATTATTAGTGACCTTTGTGCTGGCTTGGTTGGGGGATTGGGTT
                   | |||  ||     ||     ||   | |     ||   |  ||     |||| ||||   |  ||     ||  | ||| ||||       | || ||  |||||||||||||||||||  ||||| || ||| |||||||||| || || |||||||| ||||||||||| || |||||||| ||| | ||||| |||||  
gtatgttctgtcagttgaaagtatccgtttctctgtcaattgttgataggctcttgatagttatttttcttaatattatcagcttttctgatactgttgtttatgaactgcatctgccttcagCTTGTGAAGAATCCTGGTCTTTTTGACGTATTAGTGATGCCAAATCTCTATGGTGACATTATTAGTGATCTATGTGCTGGTTTGATCGGGGGCTTGGGCC

upper sequence: GLYMA13G20790.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G03290.1 (Arabidopsis thaliana), 3'ss of exon 4
---------------------------------------------------------------------gtaatattggtgaacttgatgtatgagaaaactgcatttggaaa-tactta------gtatttggaaattaatgatattggttatttttctgaccttcc-gcagCTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTATGGTGATATTATTAGTGACCTTTGTGCTGGCTTGGTTGGGGGATTGGGTT
                                                                     |||  |||    |  ||| | | | || ||  || |||||     | |||       || |||  |  |  |  ||     | ||  |  |||  | || |||||||||||| || || |||||||| |||||  | |||||||| ||||| || ||||| |||||||| || || ||||| || |||||||| ||| | || |
gtaagctatgacaccgaatctactattttttcgttaattaagttagtggtcgggactcgggatcaccttgtag-atttagaagtttggtttcttagcaacttgtatttgagttctgcttttccactgtttttacatgtggaatatgcgactgataatcttgagatacctgcagCTTGTGAAAAACCCAGCACTTTTTGATGTCTTGGTGATGCCAAACCTGTACGGTGACATTATTAGCGATCTGTGTGCCGGATTGGTTGGAGGACTAGGAT

upper sequence: GLYMA13G20790.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0040g01700.t01 (Vitis vinifera), 3'ss of exon 4
--gtaatatt---ggtgaacttgatgtatgagaaaactgcatttggaaatac-ttagtatttggaaattaatgatattggttatttttctgaccttccgcagCTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTATGGTGATATTATTAGTGACCTTTGTGCTGGCTTGGTTGGGGGATTGGGTT
    |||||    |   |||  |||   |      |    ||   ||||| |  ||| ||      |  ||  |   |   |  | |  |||   |   |||||||||||||||||||| ||||| |||||  | |||||||||||||| |||||||| ||||||||||| || |||||||||||| |||||||| | || |
gcaaaatatgtaagaaaaacgagatcattctaggcatatgatacagaaatgcactaggataaaactaggaaccactctaacttctctcttga--ataaacagCTTGTGAAGAATCCTGCGCTTTTTGATGTGTTGGTGATGCCTAACCTCTATGGTGACATTATTAGTGATCTCTGTGCTGGCTTGATTGGGGGACTAGGCT

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|151406995|gb|EV276810.1|EV276810
EST:     ATCCTGAGATAACTTATGAGGAAGTTGTCATTGACAATTGCTGCATGATG                         CTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTAT
genomic: ATCCTGAGATAACTTATGAGGAAGTTGTCATTGACAATTGCTGCATGATGgtaatattgg ... ccttccgcagCTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTAT
EST: gi|21677612|gb|BQ629963.1|BQ629963
EST:     ATCCTGAGATAACTTATGAGGAAGTTGTCATTGACAATTGCTGCATGATG                         CTTGTGAAGAATCCTGCACTTTTCGATGTACTATTGATGCCTAACCTTTAT
genomic: ATCCTGAGATAACTTATGAGGAAGTTGTCATTGACAATTGCTGCATGATGgtaatattgg ... ccttccgcagCTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTAT
EST: gi|254321137|gb|GR827586.1|GR827586
EST:     ATCCTGAGATAACTTATGAGGAAGTTGTCATTGACAATTGCTGCATGATG                         CTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTAT
genomic: ATCCTGAGATAACTTATGAGGAAGTTGTCATTGACAATTGCTGCATGATGgtaatattgg ... ccttccgcagCTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTAT
EST: gi|7924579|gb|AW830605.1|AW830605
EST:     ATCCTGAGATAACTTATGAGGAAGTTGTCATTGACAATTGCTGCATGATG                         CTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTAT
genomic: ATCCTGAGATAACTTATGAGGAAGTTGTCATTGACAATTGCTGCATGATGgtaatattgg ... ccttccgcagCTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatacttagtatttggaaattaatgatattggttatttttctgaccttccgcagCTTGTGAAGAATCCTGCACTTTTCGATGTACTAGTGATGCCTAACCTTTATGGTGATATTATTAGTGACCTTTGTGCTGGCTTGGTTGGGGGATTGGGTT
                                       ttctgac  putative branch site (score: 2)
                                    tttttctgaccttcc  CT-rich tract
                 aaattaatgatattgg  TA-rich tract