Sequence
atgc intronic sequence ATGC exonic sequence...actgctaagagtttgattgggaaatttggagtgtatacctgtggtttttcttgtttagctttgttttactaagagacctattttgtgaattctttgtcagAACTCATTGGATCCACTGATTTTGTGGAGAAGGGGACAAACAATGTTGTGTTTAGAACCTGTGATGAAGAAAAAGATAGGGTTGTGTTTCAAATAGGAAC
Basic information
| species | Glycine max |
| transcript | GLYMA08G36840.1 |
| intron # | 2 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G36840.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G49640.2 (Arabidopsis thaliana), 3'ss of exon 2
---------------actgctaagagtttgattgggaaatttggagtgtatacctgtggtttttcttgtttagctttgttttactaagagacctattttgtgaattctttgtcagAACTCATTGGATCCACTGATTTTGTGGAGAAGGGGACAAACAATGTTGTGTTTAGAACCTGTGATGAAGAAAAAGATAGGGTTGTGTTTCAAATAGGAAC
| | | ||| || | || | | | | | || || ||| ||| | | || | | | |||| | | | | ||| ||| | |||| ||||||||||| || ||| | ||||| || ||||| || ||||||||||||||| |||||||||
acttaaacaagatattttctttggtgttcccctgcttatctttatgaat-catataggcttctttctgtggttcttcctgattctcaaattcttattgtagTTCTCCCTCTACAGTTGCTTCTGGGACATCTGAGTTTGTGGAGAAAGGAACAGATAATGTAGTCTTTAGCACATGTGATGAAGAAAAAAGTAGGGTTGTT--------------
upper sequence: GLYMA08G36840.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G49640.1 (Arabidopsis thaliana), 3'ss of exon 2
-actgctaagagtttgattgggaaatttggagtgtatacctgtggtttttcttgtttagctttgttttactaagagacctattttgtgaattctttgtcagAACTCATTGGATCCACTGATTTTGTGGAGAAGGGGACAAACAATGTTGTGTTTAGAACCTGTGATGAAGAAAAAGATAGGGTTGTGTTTCAAATAGGAAC
| | | ||| || | || | | | | | || || ||| ||| | | || | | | |||| | | | | ||| ||| | |||| ||||||||||| || ||| | ||||| || ||||| || ||||||||||||||| ||||||||| ||||| || |||||
ttttctttggtgttcccctgcttatctttatgaat-catataggcttctttctgtggttcttcctgattctcaaattcttattgtagttctccctctacagTTGCTTCTGGGACATCTGAGTTTGTGGAGAAAGGAACAGATAATGTAGTCTTTAGCACATGTGATGAAGAAAAAAGTAGGGTTGTTTTTCAGATGGGAAC
upper sequence: GLYMA08G36840.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ24692 (Selaginella moellendorffii), 3'ss of exon 2
actgctaagagtttgattgggaaatttggagtgtatacctgtggtttttcttgtttagctttgttttactaagagacctattttgtgaattctt-tgtcagAACTCATTGGATCCACTGATTTTGTGGAGAAGGGGACAAACAATGTTGTGTTTAGAACCTGTGATGAAGAAAAAGATAGGGTTGTGTTTCAAATAGGAAC
|| ||| || | | | | || | || || |||| | |||| || | ||||||||||||||||| || ||| |||| ||||||||||| || | | || | |||| || ||||| || || |||||
------------------------------------------------gtacgtgagacttcgtccatcgatttcgtgtgtcacgtccttgctcgtgccagACGTGCTTGGCTCTATCGATTTTGTGGAGAAGGGAACGAACGATGTCGTGTTTAGAACTTGCAAGGCGGAGAGAGATCATGTCGTGTTCCAGATGGGAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcttgtttagctttgttttactaagagacctattttgtgaattctttgtcagAACTCATTGGATCCACTGATTTTGTGGAGAAGGGGACAAACAATGTTGTGTTTAGAACCTGTGATGAAGAAAAAGATAGGGTTGTGTTTCAAATAGGAAC
ttctttgtc CT-rich tract
tttgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actgctaagagtttgattgggaaatttggagtgtatacctgtggtttttcttgtttagctttgttttactaagagacctattttgtgaattctttgtcagAACTCATTGGATCCACTGATTTTGTGGAGAAGGGGACAAACAATGTTGTGTTTAGAACCTGTGATGAAGAAAAAGATAGGGTTGTGTTTCAAATAGGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
actgcta
- - - - gagtttg
- - - - - - - - - - - - - tggagtg
- - - - - - - - - - - - - - - - - - acctgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttttgtg
