Sequence
atgc intronic sequence ATGC exonic sequencegtacagaaattgaaatatctgataattatatttatgcttgatggttttgtaatgtaaactccattatctgaaattttattattattttatttgtgtgaatagAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACTACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
Basic information
species | Glycine max |
transcript | GLYMA06G43820.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G43820.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0028g02640.t01 (Vitis vinifera), 3'ss of exon 4
---------------------gtacagaaattgaaatatctgataattatatttatg--cttgatggttttgtaatgtaaactccattatctgaaattttatta-ttattttatttgtgtgaat-agAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACTACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
| | | | | | |||| | | || || | | ||| | ||| | | || ||| |||||| || | || | || | || | ||||||||| || || ||||| ||||| ||||||||||| |||||||||||||| || | || || || || |||||||| | || ||| | |||||
gtgcaagaaatatctgaaatgggaaaaagttccatgaatctagctgcttctgctgtgactttcactggtttatt-tgttagttagatgatc--aaatttgataaattttcttgcattcttgtttcagAGGAGCAGCTGGATTTTCCAGTTCTCTATGCTTCTGCCAAAGAAGGATGGGCTTCCTCCACCTTCACTAAAAGTCCTCCTGATAATACCAAGAGCATGTC
upper sequence: GLYMA06G43820.2 (Glycine max), 3'ss of exon 4
lower sequence: EFJ15282 (Selaginella moellendorffii), 3'ss of exon 4
gtacagaaattgaaatatctgataattatatttatgcttgatggttttgtaatgtaaactccattatctgaaattttattattattttatttgtgtgaatagAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACTACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
| || | | | || || | | || |||| || || || ||| | ||||||||||||||||||||| ||| | || |||||||| || || |||||||| ||| |||| || || |||| || | || ||| | |
------------------------------------gtaagcagtaatttttcccagccttcactcgtttaatttttcttcttccttgtttt------acagAGGAGCAACTAGACTTTCCAGTTTTGTACGCTTCTGCCAAGGAGGGATGGGCTTCTTCTACGTTCACAAAGGCACCAGAAGGAGAACCCACTATGGCTCC
upper sequence: GLYMA06G43820.2 (Glycine max), 3'ss of exon 4
lower sequence: EFJ08344 (Selaginella moellendorffii), 3'ss of exon 4
gtacagaaattgaaatatctgataattatatttatgcttgatggttttgtaatgtaaactccattatctgaaattttattattattttatttgtgtgaatagAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACTACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
| || | | | | || || | | || |||| || || || ||| | ||||||||||||||||||||| ||| | || |||||||| || || |||||||| ||| |||| || || |||| || | || ||| | |
------------------------------------gtaagcagtaattttacccagccttcactcgtttaatttttcttcttccttgtttt------acagAGGAGCAACTAGACTTTCCAGTTTTGTACGCTTCTGCCAAGGAGGGATGGGCTTCTTCTACGTTCACAAAGGCACCAGAAGGAGAACCCACTATGGCTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaatgtaaactccattatctgaaattttattattattttatttgtgtgaatagAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACTACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
attatctgaaatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacagaaattgaaatatctgataattatatttatgcttgatggttttgtaatgtaaactccattatctgaaattttattattattttatttgtgtgaatagAGGAGCAACTAGACTTTCCTGTTCTTTATGCTTCTGCTAAAGAAGGATGGGCGTCTACTACATTTACCAAGGATCCTCCTGCTGATGCCAGAAATATGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT