Sequence
atgc intronic sequence ATGC exonic sequencegtattatgttatgtcacatctcaattcttgctaatacttgtgtggagaaaacattttgtttgttgccagaaattattctgtattgcaagtctggagagcttgtcaaaaagtgattgaggttggttttgcagCTTTGATTGAATCTGATGCAGAGGGGATTGGCGGTAGTGGATTTGTTGAATGTATAAGAGAGCATATACATTCG
Basic information
species | Glycine max |
transcript | GLYMA08G04510.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os01g39380.3 (Oryza sativa), 3'ss of exon 16
gtattatgttatgtcacatctcaattcttgctaatacttgtgtggagaaaacattttgtttgttgccagaaattattctgtattgcaagtctggagagcttgtcaaaaagtga-ttgaggttggttttgcagCTTTGATTGAATCTGATGCAGAGGGGATTGGCGGTAGTGGATTTGTTGAATGTATAAGAGAGCATATACATTCG
| | | || || | | | ||| | | | |||| ||| | | | |||| || | | || || ||||||||||||||||| ||||| ||||| || ||||| |||||||| |||||||| || || ||||||||||| ||||||
-------------------------gtatcttgaagtttcagtcaaaccataacattgcgtactct----atttatctatggctgccataccttcc--catgtcccaacataacttttatttctctttgcagCTTTGATTGAGTCTGACGCAGAAGGCATTGGGGGTAGTGGCTTTGTTGAGTGCATCAGAGAGCATATTCATTCG
upper sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G074572_T01 (Zea mays), 3'ss of exon 15
gtattatgttatgtcacatctcaattcttgctaatacttgtgtggagaaaacattttgtttgttgccagaaattattctgtattgcaagtctggagagcttgtcaaaaagtgattgaggttggttttgcagCTTTGATTGAATCTGATGCAGAGGGGATTGGCGGTAGTGGATTTGTTGAATGTATAAGAGAGCATATACATTCG
|| | | |||| || |||| | | | | || | ||| | || || | || || |||||||||||||||||| ||||| ||||| || || || || ||||| ||||||||||| || ||||||||||| ||||||
---------------------------------------gtattgtgaaat--ttcagtttactatttgtctgttccttccataccctccctgta---tttttc---------ctaagtttccttttgcagCTTTGATTGAGTCTGACGCAGAAGGCATCGGGGGAAGTGGCTTTGTTGAATGCATCAGAGAGCATATTCATTCG
upper sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 15
lower sequence: AT1G49040.1 (Arabidopsis thaliana), 3'ss of exon 15
gtattatgttatgtcacatctcaattcttgctaata-cttgtgtggagaaaacattttgtttgttgccagaaattattctgtattgcaagtctggagagcttgtcaaaaagtgattgaggttggttttgcagCTTTGATTGAATCTGATGCAGAGGGGATTGGCGGTAGTGGATTTGTTGAATGTATAAGAGAGCATATACATTCG
||| || | | || | ||| | ||| ||| | | || | || | | | | | | ||| | || |||| |||||||||||||||| ||||||||||| || ||||| ||| | || |||||| |||||||| | |||||
-------------------------------aaatggtttccattgtgattatgtttccgtctctgctgtaaaatccagagagctg-atgttttctcaattgaaaattgaaccccaaattttgctcatgtagCTCTGATTGAATCTGATGCTGAGGGGATTGGTGGGAGTGGCTTTATCGAGTGTATACGAGAGCATCTGTATTCG
upper sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 15
gtattatgttatgtcacatctcaattcttgctaatacttgtgtggagaaaacattttgtttgttgccagaaattattctgtattgcaagtctggagagcttgtcaaa-----aagtgattgaggttggttttgcagCTTTGATTGAATCTGATGCAGAGGGGATTGGCGGTAGTGGATTTGTTGAATGTATAAGAGAGCATATACATTCG
|| | | | | | | | | ||| || | | | | || | || || | ||| | |||| |||| || ||| |||||||||||||||||| |||||||| || || ||||||||||||||||||||||| |||||||| ||||| ||||||||
---------------------------------gtatgtatctaaggtccaaaatctatttaatgaaaattaatctgcttgaatggtggtttttggagtcttgcaaatgaataagtattttctattgtttttgcagCTTTGATTGAGTCTGATGCGGAAGGAATTGGCGGTAGTGGATTTGTTGAGTGTATAAGGGAGCACATACATTCA
upper sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 15
lower sequence: EFJ09845 (Selaginella moellendorffii), 3'ss of exon 15
gtattatgttatgtcacatctcaattcttgctaatacttgtgtggagaaaacattttgtttgttgccagaaattattctgtattgcaag-tctggagagcttgtcaaaaagtgattgaggttggttt-tgcagCTTTGATTGAATCTGATGCAGAGGGGATTGGCGGTAGTGGATTTGTTGAATGTATAAGAGAGCATATACATTCG
| ||| ||| | | | | | | | || || ||| ||||||||||||||| || ||||| || || ||||| || |||||||||||||| ||| | || |||||||| || |||
------------------------------------------------------------------------------------gtaagatctcgttctcattacgtagtgctcctaagctttttttctgcagCTTTGATTGAGTCCGATGCGGAAGGTATTGGTGGAAGTGGATTTGTTGAGTGTGTCAGGGAGCATATTCACTCG
upper sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 15
lower sequence: EFJ15218 (Selaginella moellendorffii), 3'ss of exon 15
gtattatgttatgtcacatctcaattcttgctaatacttgtgtggagaaaacattttgtttgttgccagaaattattctgtattgcaag-tctggagagcttgtcaaaaagtgattgaggttggttt-tgcagCTTTGATTGAATCTGATGCAGAGGGGATTGGCGGTAGTGGATTTGTTGAATGTATAAGAGAGCATATACATTCG
| ||| ||| | | | | | | || || ||| ||||||||||||||| || ||||| || || ||||| || |||||||||||||| ||| | || |||||||| || |||
------------------------------------------------------------------------------------gtaagatctctttctcattacgtagtgctcctaagctttttttctgcagCTTTGATTGAGTCCGATGCGGAAGGTATTGGTGGAAGTGGATTTGTTGAGTGTGTCAGGGAGCATATTCACTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgtattgcaagtctggagagcttgtcaaaaagtgattgaggttggttttgcagCTTTGATTGAATCTGATGCAGAGGGGATTGGCGGTAGTGGATTTGTTGAATGTATAAGAGAGCATATACATTCG
tcaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattatgttatgtcacatctcaattcttgctaatacttgtgtggagaaaacattttgtttgttgccagaaattattctgtattgcaagtctggagagcttgtcaaaaagtgattgaggttggttttgcagCTTTGATTGAATCTGATGCAGAGGGGATTGGCGGTAGTGGATTTGTTGAATGTATAAGAGAGCATATACATTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA