Sequence
atgc intronic sequence ATGC exonic sequence...caacaatggggaaggagtgacttggtcaagattttgttgactggagaattgtggtaagtgaatgactttttcttttttcattttctttgtttgggtgcagTGGTTGCCATGAAAGCATTGAAAGATTCGCTGCGGGTACCCGAAAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
Basic information
species | Glycine max |
transcript | GLYMA02G11090.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G11090.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G25570.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------------------------caacaatggggaaggagtgacttggtcaagattttgttgactggagaattgtggtaagtgaatgactttttcttttttcattttctttgtttgggt-gcagTGGTTGCCATGAAAGCATTGAAAGATTCGCTGCGGGTACCCGAAAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
||||| || ||| ||| | || || | | || ||| | || | || | | | ||| ||| |||||| | ||||| ||| |||||||||||||| ||||| || || || || || ||||||||||||||||||||||||||||||||||||| ||||| |||||||||||
gtacgtcaagttaaggatactcactgttgtttgatggattgcaacatcatgggtttcttgatttgattggagttctgataat---agctttgagaaaaactggt--ctgtggcatatttttgactctctgtttgttttacagTGACTGCTATGAAAGCATTGAAGGATTCACTACGTGTTCCTGATAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAGCTGGGACGCTTGGGAGGG
upper sequence: GLYMA02G11090.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0011g03060.t01 (Vitis vinifera), 3'ss of exon 2
--------caacaatggggaaggagtgacttggtcaagattttgttgactggagaattgtggtaagtga-atgactttttcttttttcattttctttgtttgggtgcagTGGTTGCCATGAAAGCATTGAAAGATTCGCTGCGGGTACCCGAAAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
||||| | || | || |||| || ||| | | | | | | | | ||| | | ||| | ||| ||||| | ||||| |||| |||| |||||||||||| || || || | || | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
atgtattttgtcaatgtgaaaccaatg----ggtcctaataatgtgg---gaaaccctttattttgcaatgtgatgtgtggtttaattattgggcatgtttc--tccagTGATTGCTATGAGAGCATTGAAAGAATCTCTTCGTATTCCGGCTAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
upper sequence: GLYMA02G11090.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ07666 (Selaginella moellendorffii), 3'ss of exon 1
caacaatggggaaggagtgacttggtcaagattttgttgactggagaattgtggtaagtgaatgactttttcttttttcattttctttgtttgggtgcagTGGTTGCCATGAAAGCATTGAAAGATTCGCTGCGGGTACCCGAAAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
| |||| | ||| | | | | |||| || | | |||| |||| ||| ||| |||||| | || ||| ||| |||||||| |||| || || || |||||||| |||||||| |||||||||||||| |||||||||| | ||||| ||
-------------------------------gtatgttaa---aggaagtttcggacgtga-tgtttgtaaacgtttttttttttttttttt---tgcagTTCTAGCAATGCTAGCTTTGAAAGAAAGCTTGCGAGTTCCTGAGAGAATGGGATGGAATGGCGATCCTTGTGCTCCGTTTAATTGGGATACATGGGAAGG
upper sequence: GLYMA02G11090.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ07722 (Selaginella moellendorffii), 3'ss of exon 1
caacaatggggaaggagtgacttggtcaagattttgttgactggagaattgtggtaagtgaatgactttttcttttttcattttctttgtttgggtgcagTGGTTGCCATGAAAGCATTGAAAGATTCGCTGCGGGTACCCGAAAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
|| || | ||| | ||| || || |||| | | ||||| |||||| |||| ||| ||| |||||| | || ||| ||| |||||||| |||| || || || |||||||| |||||||| |||||||||||||| |||||||||| | ||||| ||
----------------gtatgttaaaggaagtttcg--gacgtgatgttt---gtaaacgt-ttttttttttttttttttttttttttttttttttgcagTTCTAGCAATGCTAGCTTTGAAAGAAAGCTTGCGAGTTCCTGAGAGAATGGGATGGAATGGCGATCCTTGTGCTCCGTTTAATTGGGATACATGGGAAGGMapped 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|51337339|gb|CO981205.1|CO981205EST: TGAGAATTACGCTTTGGTGCCGAGTGATCCTTCCACTGTTCCGGAACAAG TGGTTGCCATGAAAGCATTGAAAGATTCGCTGCGGGTACCCGAAAGAATGG
genomic: TGAGAATTACGCTTTGGTGCCGAGTGATCCTTCCACTGTTCCGGAACAAGgtgagtggtg ... ttgggtgcagTGGTTGCCATGAAAGCATTGAAAGATTCGCTGCGGGTACCCGAAAGAATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaattgtggtaagtgaatgactttttcttttttcattttctttgtttgggtgcagTGGTTGCCATGAAAGCATTGAAAGATTCGCTGCGGGTACCCGAAAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
tgactttttctttttt CT-rich tract
tttttcttttttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caacaatggggaaggagtgacttggtcaagattttgttgactggagaattgtggtaagtgaatgactttttcttttttcattttctttgtttgggtgcagTGGTTGCCATGAAAGCATTGAAAGATTCGCTGCGGGTACCCGAAAGAATGGGTTGGAATGGTGATCCTTGTGCTCCTACTAATTGGGATGCTTGGGAGGG
- - - - gggaagg
- - - - - - - - -tgacttg
- - - - - - - - - - - - - - - - - tgttgac
- - - - - - - - - - - - - - - - - - - - - - - - -tgtggta