Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttcttgaatttttttcctccagtctttgtcattgagggttagtaaaataggtgtttatatgatacttttctgtgtacctttttttaacagGTGAGTCCTATTGAATATGGGCATGTGCTGCTGATTCCACAGATTTTTGAGTGTTTACCTCAAAGGATTGACCATGCAAGCTTCTTGCTTGCACTTCAAA
Basic information
species | Glycine max |
transcript | GLYMA08G43200.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G43200.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G55120.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtttcttgaatttttttcctccagtctttgtcattgagggttagtaaaa--taggtgtttatatgata-cttttctgtgtacctttttttaacagGTGAGTCCTATTGAATATGGGCATGTGCTGCTGATTCCACAGATTTTTGAGTGTTTACCTCAAAGGATTGACCATGCAAGCTTCTTGCTTGCACTTCAAA
||| ||| || | || | | | || |||| ||| | || || | | |||| ||||||||||| ||||| |||||||||||| |||||||||| | || |||| || ||||||||||||||||| || |||| | |||||||| |||||||
--------------------gtaaggagttgttgcttttaggagtctattttcctttgctgattatctgagaactgaactcagaattcttttaacgcagGTGAGTCCGATTGAGTATGGGCATGTGTTGCTGATTCCTCGTGTTCTTGATTGCTTACCTCAAAGGATTGATCACAAAAGCCTTTTGCTTGCTCTTCAAA
upper sequence: GLYMA08G43200.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G26850.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtttcttgaatttttttcctccagtctttgtcattgagggttagtaaaataggtgtttatatgatacttttctgtgtacctttttttaacagGTGAGTCCTATTGAATATGGGCATGTGCTGCTGATTCCACAGATTTTTGAGTGTTTACCTCAAAGGATTGACCATGCAAGCTTCTTGCTTGCACTTCAAA
|||| | || | ||| | | ||| | | | | | | || || | | | | |||||||||||| ||||| || || ||||| ||||||||||||||||| | || |||| || || ||||||||||| || || |||| | ||||||||| |||| |
gtaaagactcttgtgcagagagcttggttttttctttcttccttttattggtttcgctagcaaaagattaattctttatt--gttgtttttaacagGTTAGTCCGATAGAGTATGGCCATGTGCTGCTGATTCCTCGTGTTCTTGACTGCTTGCCTCAAAGGATCGATCACAAAAGCCTTTTGCTTGCAGTTCACA
upper sequence: GLYMA08G43200.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0090g01000.t01 (Vitis vinifera), 3'ss of exon 4
gtaagtttcttgaatttttttcctccagtctttgtcattgagggttagtaaaataggtgtttatatgatact-tttctgtgtacctttttttaacagGTGAGTCCTATTGAATATGGGCATGTGCTGCTGATTCCACAGATTTTTGAGTGTTTACCTCAAAGGATTGACCATGCAAGCTTCTTGCTTGCACTTCAAA
||| | || | || | | || || ||| ||| | || | | || | || | ||| ||||||| | | | ||||||||| |||||||||||||||||||||||||| || || ||| |||||| ||||| || || || ||||| |||| | |||||| |||||||| ||| | |
gtatgcatcc---acttctgttcttca-----tgttcttggagagtaatgagtatcaggtcttaataacactgtttctgt-tgtcaatgattaacagGTTAGTCCTATTGAATATGGGCATGTGCTTCTAATCCCAAGGATTTTCGAGTGCTTGCCGCAGAGGATCGACCGCGAAAGCTTTTTGCTTGCCCTTGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gggttagtaaaataggtgtttatatgatacttttctgtgtacctttttttaacagGTGAGTCCTATTGAATATGGGCATGTGCTGCTGATTCCACAGATTTTTGAGTGTTTACCTCAAAGGATTGACCATGCAAGCTTCTTGCTTGCACTTCAAA
cttttctgtgtacctt CT-rich tract
tttatatgatactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttcttgaatttttttcctccagtctttgtcattgagggttagtaaaataggtgtttatatgatacttttctgtgtacctttttttaacagGTGAGTCCTATTGAATATGGGCATGTGCTGCTGATTCCACAGATTTTTGAGTGTTTACCTCAAAGGATTGACCATGCAAGCTTCTTGCTTGCACTTCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT