Sequence
atgc intronic sequence ATGC exonic sequence...ttggagcctacttgtgtattgaaaatcattaagtttcttatttgtttattaagaaaatctataaggatattcatgccttactctcttggtatgttatcagAAACTAAGCATATTGCCTAGGTCAGGAGGGGCTTTGGGATTTACTTACACTCCTCCAACAAATGAGGACAGATACTTGCTTTTCATTGATGAGTTGCGTG
Basic information
species | Glycine max |
transcript | GLYMA02G39040.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G39040.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G58870.1 (Arabidopsis thaliana), 3'ss of exon 10
ttggagcctacttgtgtattgaaaatcattaagtttcttat-ttgtttattaagaaaatctataaggatattcatgccttact--ctcttggtatgttatcagAAACTAAGCATATTGCCTAGGTCAGGAGGGGCTTTGGGATTTACTTACACTCCTCCAACAAATGAGGACAGATACTTGCTTTTCATTGATGAGTTGCGTG
| ||| || | || | || ||| || || | | | || | || |||| | || | | | | || | ||||| |||||||||| || || ||||||||||| ||||| ||||| |||| ||| ||||| |||| |||||||| ||||| || |||||||| | | ||
--------------------gtaaagcagtgagaaccgcatgttgcttgatactcat-tttttacatgtgttaatgctctgctaatacatattgtatttttagAAATTAAGCATATTACCAAGATCAGGAGGGGCATTGGGCTTTACATACATTCCCCCAACGCATGAAGACAGATATTTGCTCTTTATTGATGAACTACATG
upper sequence: GLYMA02G39040.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G47060.1 (Arabidopsis thaliana), 3'ss of exon 10
ttggagcctacttgtgtattgaaaatcattaagtttcttatttgt-ttattaagaaaatctataaggatattcatgccttactc-tcttggta-tgttatcagAAACTAAGCATATTGCCTAGGTCAGGAGGGGCTTTGGGATTTACTTACACTCCTCCAACAAATGAGGACAGATACTTGCTTTTCATTGATGAGTTGCGTG
| | | | ||| | ||| | | || ||| | || || || | | | | | ||||| | || ||| |||| || |||| ||||||| ||||||||||||| || |||||||||| ||||||||||| |||| |||||| || | ||| |||||||| || || |||||||||||| ||| ||
--gtaaaatgcaaaaactttgtctacatttacgctcattgtttatgttgtttagtacgtgcaaatg---attcaagttttgctcatctttgtggtgttgtcagAAATTAAGCATATTGCCAAGAACAGGAGGGGCATTGGGATTTACATACATTCCTCCTACTAGTGAAGACAGATATTTACTCTTCATTGATGAGCTGCTTG
upper sequence: GLYMA02G39040.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv06s0004g06120.t01 (Vitis vinifera), 3'ss of exon 10
ttggagcctacttgtgtattgaaaatcattaagtttcttatttgtttattaagaaaatctataaggatattcatgccttactctcttggtatgttatcagAAACTAAGCATATTGCCTAGGTCAGGAGGGGCTTTGGGATTTACTTACACTCCTCCAACAAATGAGGACAGATACTTGCTTTTCATTGATGAGTTGCGTG
| || | || || | | | || | || | || | ||| || || | | |||| ||||| | ||||||||||| || ||||||||||| ||||| ||||| || |||||||| || |||||||||||||| ||||| |||||||||||||| ||||
tactaggatgtgagtccatcacatgcatacatgctttgtcattttaaatcgtccgcgtaacattagatggtccaatgctatctgtattttgtgttcacagAAGTTGAGCATATTGCCAAGATCAGGAGGGGCATTGGGTTTTACATATACTCCTCCCACCAATGAGGACAGATATTTGCTGTTCATTGATGAGTTACGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattaagaaaatctataaggatattcatgccttactctcttggtatgttatcagAAACTAAGCATATTGCCTAGGTCAGGAGGGGCTTTGGGATTTACTTACACTCCTCCAACAAATGAGGACAGATACTTGCTTTTCATTGATGAGTTGCGTG
gccttac putative branch site (score: 3)
aagaaaatctataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggagcctacttgtgtattgaaaatcattaagtttcttatttgtttattaagaaaatctataaggatattcatgccttactctcttggtatgttatcagAAACTAAGCATATTGCCTAGGTCAGGAGGGGCTTTGGGATTTACTTACACTCCTCCAACAAATGAGGACAGATACTTGCTTTTCATTGATGAGTTGCGTG
- - - - -acttgtg
- - - - - - - - - - gaaaatc
- - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa