Sequence
atgc intronic sequence ATGC exonic sequence...acacacagttgttgataattgagtttactagcttttgctggctgctcccagttgaaaatttcgtgtggtgattgttattttacttttatttgtgctccagGTGGTGAGTTTACGTCTCCAAACCAAGAGCGGTTTCATCACTACAAG
Basic information
species | Glycine max |
transcript | GLYMA04G36770.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G36770.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G100815_T01 (Zea mays), 3'ss of exon 1
acacacagttgttgataattgagtttactagcttttgctggctgctcccagttgaaaatttcgtgtggtgattgttattttacttttatttgtgctccagGTGGTGAGTTTACGTCTCCAAACCAAGAGCGGTTTCATCACTACAAG
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------------------gtaatataacttcactctg--ggtaacatgctgtttaaa--tgtacataattaacacctttt--cctttgttgatattttagGTGGGGAGTTTACTTCACCAAACCAAGAACGTTTTCATCATTACAAG
upper sequence: GLYMA04G36770.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G50310.1 (Arabidopsis thaliana), 3'ss of exon 4
acacacagttgttgataattgagtttactagcttttgctggctgctcccagttgaaaatttcgtgtggtgattgttattttacttttatttgtgctccagGTGGTGAGTTTACGTCTCCAAACCAAGAGCGGTTTCATCACTACAAG
|| ||| | || | ||| | || | || | ||||| | | |||| | ||| ||||| ||||| ||||||||| ||||| ||||| || |||||||| || ||||||||||||
----------gtagatgaa-aagatctttagttattttcttgcattttcattcc----tttcgagacatatttgtaagttt-cttttttttgttgattagGTGGTGAATTTACATCTCCGAATCAAGAGCGTTTCCATCACTACAAG
upper sequence: GLYMA04G36770.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 4
------acacacagttgttgataattgagtttactagcttttgctggctgctcccagttgaaaatttcgtgtggtgattgttattttacttttatttgtgctccagGTGGTGAGTTTACGTCTCCAAACCAAGAGCGGTTTCATCACTACAAG
||| | | | | | |||| || ||| || | | ||| || || || || | || | ||| || ||| | | |||||||||||||||||| || || |||||| | || ||||||||||||
gtagattgacaaaatcctggtcctatttctttaaaagaaattg-tgacaacatatgtttggaatttg-----ggatataatgatataactgttgttttt-caatagGTGGTGAGTTTACGTCCCCGAATCAAGAGTGCTTCCATCACTACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcccagttgaaaatttcgtgtggtgattgttattttacttttatttgtgctccagGTGGTGAGTTTACGTCTCCAAACCAAGAGCGGTTTCATCACTACAAG
ttttacttttattt CT-rich tract
tgattgttattttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acacacagttgttgataattgagtttactagcttttgctggctgctcccagttgaaaatttcgtgtggtgattgttattttacttttatttgtgctccagGTGGTGAGTTTACGTCTCCAAACCAAGAGCGGTTTCATCACTACAAG
acacaca
- - - -gttgttg
- - - - - - - - - - - - - - - - - -tgctggc
- - - - - - - - - - - - - - - - - - - - - tgctccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtggtg