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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtggtgtcattgttttctataacttggaacttcttaaataattgttgacaaagctttcgtatgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT

Basic information

species Glycine max
transcript GLYMA02G42560.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 19
-------------gtatggtggtgtcattg-ttttctataacttggaacttcttaaataattgttgacaaagctttcgt-atgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
|| | || | | |||| | | |||| || | | ||| || | || | | || || | | |||| ||| |||||||| | |||||| | || |||||||| ||||||||||| ||||||||||| | || || || || || ||||||||| | ||| | |
gtatttttgctacgtttagtttgaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 19
-----------gtatggtggtgtcattg-ttttctataacttggaacttcttaaataattgttgacaaagctttcgt-atgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
| | || | | |||| | | |||| || | | ||| || | || | | || || | | |||| ||| |||||||| | |||||| | || |||||||| ||||||||||| ||||||||||| | || || || || || ||||||||| | ||| | |
gtatttgctacatttagtttaaccttcccttttttgtcacttctcacattggttctgattattatcgaaacatgtgtcatatctgcagGCTGCCAAAGAATACTCTGAGCAGCTAGGGGTTGATGCTTGCATAAAACTGTTTGAGCAATTCAAATCTTACGAGGGCCTTTACTTTTTCTTGGGAGCTT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 19
gtatggtggtgtcattgttttctataacttggaacttcttaaataattgttgacaaa--gctttcgtatgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
| ||| | ||| | || | ||| || || || || || | | | || |||||| | || || || ||||||||| | ||||||||||| || || || || |||||||| || | |||||||||||| || ||||||||||| || ||||
-------gcaagtggtgtatgatatga--tgaatcttattggttattttgacactaacggtgtccatacaatttcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGTATTAAGCTCTTTGAGCAGTTCAAGTCATATGAAGGGCTATACTTTTTCCTAGGTTCAT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 19
gtatggtggtgtcattgttttctataacttggaacttcttaaataat-tgttgacaaagctttcgtatgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
||||| || ||| |||||| | | | || | || || |||| || | | | | | | | | |||| | || || || ||||||||| | ||||||||||| ||||| ||||| ||||||||||| | ||| || ||||| |||||||||||||| || ||||
gtatg-tgctgt-attgttgt--aagatgtgaattttattgtttaatgtgacactgacgtgtccatgtctttgcagGCTTGCAAGGAGTACTGTGAGCAACTTGGTGTTGATGCATGCATTAAACTCTTTGAGCAATTCAAGTCGTACGAAGGGCTGTACTTTTTCCTAGGTTCAT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 19
gtatggtggtgtcattgttttct-----ataacttggaacttcttaaa----taattgttgacaaagctttcgt--atgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
| ||||||| |||| || | || | ||| | || || ||| ||| | | ||| ||| ||| |||||||||| ||||||||||||||||||| ||| ||||||| ||||||||||||| ||||| |||||| |||||||||| || || || |
----gtacccatcattgtcttctgatggatgatccagatcgacttgtaaacttatttcttgctttcgctaatattggtctgtgcagACTGCCAAAGAATATTCTGAGCAATTGGGTGTTGATCAATGCGTAAAACTCTTTGAGCAATTTAAATCATACGAAGGATTGTACTTTTTTCTGGGTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctataacttggaacttcttaaataattgttgacaaagctttcgtatgtgttcagGTTGCTAAAGAATATTGTGAGCAATTGGGTGTTGATGCCTGCATAAAACTTTTTGAGCAATTTAGGTCATATGAAGGACTGTACTTTTTCCTTGGATCAT
                           tgttgac  putative branch site (score: 3)
 aacttcttaaataatt  TA-rich tract