Sequence
atgc intronic sequence ATGC exonic sequence...tatattacgattatgatttatgggttatacttatgcagttgtgcatgttacagaagaatcctgggttcataataatagtgggttgtttttgttatttcagGTTCATTCTAGCAAGCAAATGAGGAGGTTGGAATCGAGGAAGTCACATTCTTGGTGGTGGGATAGTCACATCAGCCCCAAGAATTCTAAGTGGCTTTCAG
Basic information
species | Glycine max |
transcript | GLYMA02G40300.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G40300.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G58320.1 (Arabidopsis thaliana), 3'ss of exon 1
-tatattacgattatgatttatgggttatacttatgcagttgtgcatgttacagaagaatcctgggttcataataatagtgggttgtttttgttatttcagGTTCATTCTAGCAAGCAAATGAGGAGGTTGGAATCGAGGAAGTCACATTCTTGGTGGTGGGATAGTCACATCAGCCCCAAGAATTCTAAGTGGCTTTCAG
|| || || | | || | | || | || | || | | ||| |||| || ||| | || | || || ||||| || | ||| ||| ||| | ||| || | | | ||||| | || ||| || | ||||||||||||||||| ||| | | ||| |||||||||||||||
gtacat-accaaaaccatcaaaagtttgtctttcttca----taccaaaaacaaccgaattctca-ttcttgat--tcttgtttttttttttttttgccagCTTCGTTCCAAGAAGAGTATCAAACGCGTAGAATCCACCAAATCAAATCCATGGTGGTGGGATAGTCATATCGGTCTCAAAAATTCTAAGTGGCTTGAGA
upper sequence: GLYMA02G40300.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g08170.t01 (Vitis vinifera), 3'ss of exon 3
-tatattacgattatgatttatgggttatacttatgcagttgtgcatgttacagaagaatcctgggttcataataatagtgggttgtttttgttatttcagGTTCATTCTAGCAAGCAAATGAGGAGGTTGGAATCGAGGAAGTCACATTCTTGGTGGTGGGATAGTCACATCAGCCCCAAGAATTCTAAGTGGCTTTCAG
| | | | | || | || | || | || | || | |||| | ||| | | || | || || |||||||||||| | || ||| | ||| |||| ||||| | ||| |||||||| ||||||||||||||||| ||||| ||||| || || |||||||| | |
ccttgcccctaatttttttcacaataagaacatctgaatgcatgttggctattttgtaggtctggtatgatattg-tggtttttatttgtttttatttcagGTTAAGTCACAAAAGAATCTGAAGAGGACAGAATCTAAGAAATCACATTCCTGGTGGTGGGATAGTCATATCAGTCCCAAAAACTCCAAGTGGCTCGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttacagaagaatcctgggttcataataatagtgggttgtttttgttatttcagGTTCATTCTAGCAAGCAAATGAGGAGGTTGGAATCGAGGAAGTCACATTCTTGGTGGTGGGATAGTCACATCAGCCCCAAGAATTCTAAGTGGCTTTCAG
tttttgtt CT-rich tract
ttgtttttgttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatattacgattatgatttatgggttatacttatgcagttgtgcatgttacagaagaatcctgggttcataataatagtgggttgtttttgttatttcagGTTCATTCTAGCAAGCAAATGAGGAGGTTGGAATCGAGGAAGTCACATTCTTGGTGGTGGGATAGTCACATCAGCCCCAAGAATTCTAAGTGGCTTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - gcagttg
- - - - - - - - - - - - - - - - - - - - - gcatgtt