Sequence
atgc intronic sequence ATGC exonic sequencegtcatatttttattcggttagccaattaagataacattcaaccaagtctaattggctttctatgctatgcagGATCTATTTTGTACATAAAGAGGGAGTTTAATTTACAAAGTGAACCCACAATAGAAGGTCTAATTGTGGCCATGTCACTTATTGGAGCCACTGTCGTTAC
Basic information
species | Glycine max |
transcript | GLYMA14G00330.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G00330.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G35300.3 (Arabidopsis thaliana), 3'ss of exon 1
------------------------------------------------------------------------------gtcatatttttattcggttagccaattaagataacattcaaccaagtctaa-ttggctttctatgctatgcagGATCTATTTTGTACATAAAGAGGGAGTTTAATTTACAAAGTGAACCCACAATAGAAGGTCTAATTGTGGCCATGTCACTTATTGGAGCCACTGTCGTTAC
||| | | | || | ||| | || | | | | | ||| || |||| | || ||||||| || | ||||||||||| | |||||||||||| | ||| | || || | ||||||||||||||||| |||||||||||||| || ||| | ||||
gtgattgattatcttctgtatccataattctgtttatgaaatttaggatcgataaagtcaggatttttatggatacaattcacagatcttttagcttatctcttttgcttg---tgtgatggattttaagttttctttgggtactctgcagGAGCTGTGTTGTACATAAAAAAGGAGTTTAATTTGGAGAGTAATCCATCAGTGGAAGGTCTAATTGTGGCGATGTCACTTATTGGTGCTACTCTGATTAC
upper sequence: GLYMA14G00330.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv03s0038g03940.t01 (Vitis vinifera), 3'ss of exon 1
--------------------gtcatatttttattcgg---ttagccaattaagataaca--ttcaaccaagtctaattggctttctatgctatgc---agGATCTATTTTGTACATAAAGAGGGAGTTTAATTTACAAAGTGAACCCACAATAGAAGGTCTAATTGTGGCCATGTCACTTATTGGAGCCACTGTCGTTAC
|| |||| | || ||| || || | | | ||| | |||| |||| | | ||| ||| || || | ||||| |||| ||| || || || ||| |||||||||| |||| |||||||||||||||||||| || || |||||||| || | ||
gcaaaattggagttcttatagtggtattcatctttaaatcttaagcattttggctgttagtctcacttgtggaaaatttttcttctgttttctgctgcagGGGCTGTTCTATACATCAAGAAGGAATTCAACTTGCAAGGTGAACCCACTGTAGAGGGTCTAATTGTGGCCATGTCTCTCATCGGAGCCACGTTCATCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagccaattaagataacattcaaccaagtctaattggctttctatgctatgcagGATCTATTTTGTACATAAAGAGGGAGTTTAATTTACAAAGTGAACCCACAATAGAAGGTCTAATTGTGGCCATGTCACTTATTGGAGCCACTGTCGTTAC
gtctaat putative branch site (score: 3)
ctttctat putative PPT
aattaagataacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatatttttattcggttagccaattaagataacattcaaccaagtctaattggctttctatgctatgcagGATCTATTTTGTACATAAAGAGGGAGTTTAATTTACAAAGTGAACCCACAATAGAAGGTCTAATTGTGGCCATGTCACTTATTGGAGCCACTGTCGTTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG