Sequence
atgc intronic sequence ATGC exonic sequencegtaatggattcaaatagcctcatagttaatactttgatgaacctgagattccattttttcacgtctcttttctttattacgatgattttgtgcagTGGACATGGGCTGCTACAATCCTGCAAAGCTCTAATGTTGCATGGGAGTATGGAGTTAGTGGACCTTTCTGGTATGCTA
Basic information
| species | Glycine max |
| transcript | GLYMA04G14790.1 |
| intron # | 2 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G14790.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G45380.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------------------gtaatggattcaaatagcc--tcatagttaatactttgatgaacc-tgagattccattttttcacgtctcttttctttattacgatgattttgtg--cagTGGACATGGGCTGCTACAATCCTGCAAAGCTCTAATGTTGCATGGGAGTATGGAGTTAGTGGACCTTTCTGGTATGCTA-----------------
||| | | ||| | | | || || | | | ||| | ||| | || | ||| ||||| | | | ||| |||||||||||||||| || || |||||||| || || || |||||| ||||||| ||||||||||| || ||||| ||||
gtaaaactataattctaataattataattgatgatataaagttataaaacactccataatctttgacgtataatttaactgtagaattttacttaaagttattaatttgatttatgttggtcgatgggtgaatagTGGACATGGGCTGCGACCATACTGCAAAGTTCAAACGTAGCATGGCAGTATGGGGTTAGTGGACCGTTTTGGTACGCTAGTGGAGCCACCATACAG
upper sequence: GLYMA04G14790.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0033g01370.t01 (Vitis vinifera), 3'ss of exon 2
gtaatggattcaaatagcctcatagttaatactttgatgaacctgagattccattttttcacgtctcttttctttattacgatgattttgtgcagTGGACATGGGCTGCTACAATCCTGCAAAGCTCTAATGTTGCATGGGAGTATGGAGTTAGTGGACCTTTCTGGTATGCTA-----------------
|||||| | | || || || | || | || ||| | | |||||| || | | | | || | | ||| | ||| |||||||| |||||||| |||||| |||||||||| ||||| |||||| ||||||||||||| || |||||||||||||| |
gtaatgt-ctaatatcgcttcctttgtagttctac-atggaattcagattcaat------aagcttatattttcgagtacc---ggtctgtacagTGGACTTGGGCTGCCACAATCTTGCAAAGCTCCAATGTAGCATGGCAGTATGGAGTTAGCGGCCCTTTCTGGTATGCCAGTGGAGCTACCATCCAG
upper sequence: GLYMA04G14790.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S409_42V6.1 (Physcomitrella patens), 3'ss of exon 2
----------------------------------------gtaatggattcaaatagcctcatagttaatactttgatgaacctgagattccattttttcacgtctcttttctttattacgatg-attttgtgcagTGGACATGGGCTGCTACAATCCTGCAAAGCTCTAATGTTGCATGGGAGTATGGAGTTAGTGGACCTTTCTGGTATGCTA---------------------
|| | || | || | || ||| || || | ||| || | | || ||| | | | | || || | |||||||||||||||||||| || || | || ||||| || || || ||| |||| ||||||||||| ||||||||||| ||||
gtatggatcatgtgcacgaggaatcgaatgtgtaattgtgcctttgcagtctagcagttctcaaattgcaactgtgttgtaa-tgaattttcgtgattctccgttgtgatggtggcctggggtggatgtggtgcagTGGACATGGGCTGCAACCATTTTACAGAGCTCCAACGTGGCGTGGCAGTACGGAGTTAGTGGGCCTTTCTGGTACGCTAGTGGCGCCACTGTGCAGGTGC
upper sequence: GLYMA04G14790.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S257_108V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------gtaatggattcaaatagcctcatagttaatactttgatgaacctgagattcca------ttttttcacgtctcttttctttattacgatgattttgtgcagTGGACATGGGCTGCTACAATCCTGCAAAGCTCTAATGTTGCATGGGAGTATGGAGTTAGTGGACCTTTCTGGTATGCTA---------------------
| | | | || | ||| | | | || || | || || | || | || | | | || | | ||| | ||||||||||||||||| || || || || || || ||||| || ||| |||||||||| || || || ||||||||||| |
gtaggccaaagtttcgcaacattagtcggtattaacttcaaaatcgttga--cgaggattcagaagttttagaaacgttggctgacagacatgaccctggttgtggttgtttcg--cagTGGACATGGGCTGCAACGATTCTCCAGAGTTCCAATGTGGCCTGGCAGTATGGAGTAAGCGGTCCCTTCTGGTATGCAAGTGGCGCCACCGTGCAGGTGT
upper sequence: GLYMA04G14790.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ06356 (Selaginella moellendorffii), 3'ss of exon 2
gtaatggattcaaatagcctcatagttaatactttgatgaacctgagattccattttttcacgtctcttttctttattacgatgattttgtgc-agTGGACATGGGCTGCTACAATCCTGCAAAGCTCTAATGTTGCATGGGAGTATGGAGTTAGTGGACCTTTCTGGTATGCTA-----------------
|| | || || | || || || | | | || | ||| | ||||||| ||||| || |||||| |||||||||| |||||||| ||||| || || || ||||| || ||||||||||| |
----------------------------------gtctggagcttgctcgtcactattcagtgttggagctcagtgct-cattgctcgtgttctagTGGACTTGGGCAGCAACAATCTTGCAAAGCTCGAATGTTGCCTGGGAATACGGTGTCAGTGGCCCGTTCTGGTATGCCAGTGGGGCTACCATTCAG
upper sequence: GLYMA04G14790.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ26403 (Selaginella moellendorffii), 3'ss of exon 2
gtaatggattcaaatagcctcatagttaatactttgatgaacctgagattccattttttcacgtctcttttctttattacgatgattttgtgc-agTGGACATGGGCTGCTACAATCCTGCAAAGCTCTAATGTTGCATGGGAGTATGGAGTTAGTGGACCTTTCTGGTATGCTA-----------------
|| | || || | || || || | | | || | ||| | ||||||| ||||| || |||||| |||||||||| |||||||| ||||| || || || ||||| || ||||||||||| |
----------------------------------gtctggatcttgctcgtcactattcagtgttggagctcggtgct-cattgctcgtgttctagTGGACTTGGGCAGCAACAATCTTGCAAAGCTCGAATGTTGCCTGGGAATACGGTGTCAGTGGCCCGTTCTGGTATGCCAGTGGGGCTACCATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acctgagattccattttttcacgtctcttttctttattacgatgattttgtgcagTGGACATGGGCTGCTACAATCCTGCAAAGCTCTAATGTTGCATGGGAGTATGGAGTTAGTGGACCTTTCTGGTATGCTA
tcttttctttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatggattcaaatagcctcatagttaatactttgatgaacctgagattccattttttcacgtctcttttctttattacgatgattttgtgcagTGGACATGGGCTGCTACAATCCTGCAAAGCTCTAATGTTGCATGGGAGTATGGAGTTAGTGGACCTTTCTGGTATGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
