Sequence
atgc intronic sequence ATGC exonic sequencegtatgaaacttatgcaacatttaagttgacttgttagacttgttgagttttgctttagaggcacttatcttaaatttcaaagcagGTTTTTGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCAATCACCAAGTCTGCCCGCTCTTCG
Basic information
species | Glycine max |
transcript | GLYMA15G02780.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G02780.1 (Glycine max), 3'ss of exon 17
lower sequence: AT1G72960.1 (Arabidopsis thaliana), 3'ss of exon 16
--gtatgaaacttatgcaacat-ttaagttgacttgttagacttgtt--gagttttgctttagag--gcacttatcttaaatttcaaagcagGTTTTTGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCAATCACCAAGTCTGCCCGCTCTTCG
|| || | || | ||| ||| | || ||| | |||| | | | | ||||| ||||||| ||| | || || |||||||||||||||||||| ||| ||||||| |||||||| ||| |||||||||| || || || || || ||| |
gtatagcaaggcttcttaatgtgcccagtgatctttcaaaaccagtttcaaacaaccatttaatcttgaatctggttgtaattttttttcagGTTTGGTACAATCTTCAGCCATGATTCTGATTCAATGCCACGTGTTTGGACCGGAAAAGAGGATCTTCGAGCAATTACTAAATCAGCTCGATCTGCT
upper sequence: GLYMA15G02780.1 (Glycine max), 3'ss of exon 17
lower sequence: AT3G13870.1 (Arabidopsis thaliana), 3'ss of exon 17
gtatga--aacttatgcaacatttaa-gttgacttgttagacttgttgagttttgctttagaggcacttatct---taaatttcaaagcagGTTTTTGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCAATCACCAAGTCTGCCCGCTCTTCG
|| | | | ||| | || | || ||||| || || | | | |||| | | ||| ||| | ||| ||| ||| | || || |||||||||||||||||||| ||| ||||||| ||||| || || | ||||||| || || || || ||| ||
gtgtcaccattttacttgtctttcatcatttccttgtccgataacttccatctc-ttacagagctttctgattaaacaaacttctatccagATTTGCTACAATCTTCAGCCATGATTCTGATTCAATGCCACGTGTTTGGACTGGAAAGGAGGACATCAGAGCAATTACAAAAATGGCTCGTTCTGCG
upper sequence: GLYMA15G02780.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 3'ss of exon 17
-----------------gtatgaaacttatgcaacatttaagttgacttgttagactt------gttgagttttgctttagaggcacttatct--------taaatttca----aagcagGTTTTTGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCAATCACCAAGTCTGCCCGCTCTTCG
| ||||| | | | | || | || ||||| | | | | | | || || |||| | |||| | | |||||||| |||||||||||| ||||||||||| |||||||| ||| | ||||| || ||||||||| |||| ||||||||||| |||| || |||||
gttgcaactgttacattatttgaaattcttttattttccctttttattt-ttagattacaagaaatcgggatctactgctttggactgtatcaaatggggatggattttactgcatgcagGTTTGCGACATTGTTTAGCCATGATTCTGACTCAATGCCACGTGTCTGGACTGGGAAAGAAGATATTCGTGCAATCACCAAAACTGCTCGTTCTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttagacttgttgagttttgctttagaggcacttatcttaaatttcaaagcagGTTTTTGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCAATCACCAAGTCTGCCCGCTCTTCG
ttatcttaaatttcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaaacttatgcaacatttaagttgacttgttagacttgttgagttttgctttagaggcacttatcttaaatttcaaagcagGTTTTTGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCAATCACCAAGTCTGCCCGCTCTTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG