Sequence
atgc intronic sequence ATGC exonic sequencegtacagcaattgaaatatctgatagttatatttatgcttgattattttgtaatgtaaactccattatctgaaatttttttattattttatttgtgtgtatagAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACCACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
Basic information
species | Glycine max |
transcript | GLYMA12G14080.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G14080.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0028g02640.t01 (Vitis vinifera), 3'ss of exon 4
gtacagcaa----ttgaaatatctgatagttatatttatgc--ttgattattttgtaatgtaaactccattatctgaaattt-----------ttttattattttatttgtgtgtat-----agAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACCACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
|| || || |||||| | |||| || || || || | ||| | | ||| |||| || | || ||| || | ||| ||| | | ||||||||| || || ||||| ||||| ||||||||||| |||||||||||||| || |||| || || || |||||||| | || ||| | |||||
gtgcaagaaatatctgaaatgggaaaaagttccatgaatctagctgcttctgctgtgactttcactggtttatttgttagttagatgatcaaatttgataaattttcttgcattcttgtttcagAGGAGCAGCTGGATTTTCCAGTTCTCTATGCTTCTGCCAAAGAAGGATGGGCTTCCTCCACCTTCACTAAAAGTCCTCCTGATAATACCAAGAGCATGTC
upper sequence: GLYMA12G14080.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ15282 (Selaginella moellendorffii), 3'ss of exon 4
gtacagcaattgaaatatctgatagttatatttatgcttgattattttgtaatgtaaactccattatctgaaatttttttattattttatttgtgtgtatagAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACCACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
| | ||||| | || || | | || |||| || || || ||| || ||||||||||||||||||||| ||| | || |||||||| || || |||||||| ||| | || || || |||| || | || ||| | |
---------------------------------gtaagcagtaatttttc---ccagccttcactcgtttaatttttcttctt-ccttgttt-----tacagAGGAGCAACTAGACTTTCCAGTTTTGTACGCTTCTGCCAAGGAGGGATGGGCTTCTTCTACGTTCACAAAGGCACCAGAAGGAGAACCCACTATGGCTCC
upper sequence: GLYMA12G14080.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ08344 (Selaginella moellendorffii), 3'ss of exon 4
gtacagcaattgaaatatctgatagttatatttatgcttgattattttgtaatgtaaactccattatctgaaatttttttattattttatttgtgtgtatagAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACCACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
| | ||||| | | || || | | || |||| || || || ||| || ||||||||||||||||||||| ||| | || |||||||| || || |||||||| ||| | || || || |||| || | || ||| | |
---------------------------------gtaagcagtaatttt---acccagccttcactcgtttaatttttcttctt-ccttgttt-----tacagAGGAGCAACTAGACTTTCCAGTTTTGTACGCTTCTGCCAAGGAGGGATGGGCTTCTTCTACGTTCACAAAGGCACCAGAAGGAGAACCCACTATGGCTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaatgtaaactccattatctgaaatttttttattattttatttgtgtgtatagAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACCACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
attatctgaaattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacagcaattgaaatatctgatagttatatttatgcttgattattttgtaatgtaaactccattatctgaaatttttttattattttatttgtgtgtatagAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACCACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT