Sequence
atgc intronic sequence ATGC exonic sequence...tgattatttgttattagctcttaaatgcctttcatttcttattgtattgtatttgcaatattttgacacaaattgactttgactctttgtttctgttcagGATCTGGCTGTTGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGG
Basic information
species | Glycine max |
transcript | GLYMA18G46420.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os04g58620.1 (Oryza sativa), 3'ss of exon 8
tgattatttgttattagctcttaaatgcctttcatttcttattgt-attgtatttgcaatattt----tgacacaaattgactttgactctttgtttctgttcagGATCTGGCTGTTGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGG
| ||| | |||||| || | || ||| | |||| | | | ||| ||| | | ||| | |||| |||| | | |||||| ||||||| |||||| || | ||| | ||||||||||| || ||||||||||| |||||||||
----tgccatttacaggaaaaaaaatgcattgacctgactagtgttaatgtaatctaagtctttcttctgatagatatttgttgtgacatactgttg-tatgcagGATTTGGCTGTGGTGGTCCTGTTGATATTAATACCTCTTATATCACCTAATTCTTCAAAAGGAGGG
upper sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G058948_T01 (Zea mays), 3'ss of exon 7
tgattatttgttattagctcttaaatgcctttcatttcttattgtattgtatttgcaatattttgacacaaattgactttgactctttgtttctgttcagGATCTGGCTGTTGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGG
|| || | ||| || | || | | ||| | ||| | | || | | ||| || | |||||| ||||||| |||||| || | ||| | |||||||| || || ||||||||||| |||||||||
cttgcatggcatactcattctgaagcattgcgagccttcaatcctttagtaatgttaatctagcttgcctttttaatatattttctcgtgttgtccccagGATTTGGCTGTGGTGGTCCTGTTGATATTAATACCTCTCATATCACCTAATTCTTCAAAAGGAGGG
upper sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 15
lower sequence: AT4G00630.2 (Arabidopsis thaliana), 3'ss of exon 7
tgattatttgttattagctcttaaatgcctttcatttcttattgta-ttgtatttgcaatattttgacacaaattgactttgactctttgtttctgttcagGATCTGGCTGTTGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGG
| | | | | | || ||| || |||||| ||| || | ||| | ||| | ||| |||||||||||||| || || || || || ||||| || |||||||| |||||||| ||||||||||||
----------------gtttgttcagaacacaaagttgttactgcgcttgtataaaggctatcatgctgggtaactcttttcaatctgttggtcttcacagGATCTGGCTGTGGTCGTGTTACTGATTCTCATCCCACTTATTTCACCTAATTCATCCAAAGGAGGG
upper sequence: GLYMA18G46420.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 3'ss of exon 6
--tgattatttgttattagctcttaaatgcctttcatttcttattgtattgtatttgcaatattttgacacaaattgactttgactctttgtttctgttcagGATCTGGCTGTTGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGG
| ||||||| | | | | ||| || || ||| | | | ||| || ||| ||| | || | | | |||||||| ||||||||||||| | ||||||||||||||||| ||||| || ||||| || |||||||||
tttaattatttagtgaaattttgtttatgttgaaatcttgaacatgatttgaaagtttcctttttcttttcatcttggtttt--tttgttctcttttttcagGATTTGGCTGTTGTGGTTCTTCTAATACTCATACCTCTGATTTCACCAAATTCATCTAAAGGAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtatttgcaatattttgacacaaattgactttgactctttgtttctgttcagGATCTGGCTGTTGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGG
ctctttgtttctgttc CT-rich tract
atttgcaatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattatttgttattagctcttaaatgcctttcatttcttattgtattgtatttgcaatattttgacacaaattgactttgactctttgtttctgttcagGATCTGGCTGTTGTGGTCTTGCTAATACTCATACCTCTTATTTCTCCTAATTCTTCCAAAGGAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - -aatgcct
- - - - - - - - - - - - - - - - - - - - - - - - - -tttgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gactttg