Sequence
atgc intronic sequence ATGC exonic sequence...gaccttaaaaaatagctgctgcaatgtgttttagctaatttttgttagctgatatattgttggccatattttgaatctaagcaatatttaaatggtacagAACATCTAAGGAGATATCAGATTTAGAGGGGGAGCTTTCATCTATTAGAAACCTGCTCTCCACACAAGCTGCCTTGATACATGGTTTGGCTGAAGGAGTT
Basic information
species | Glycine max |
transcript | GLYMA07G00570.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G00570.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G090573_T01 (Zea mays), 3'ss of exon 2
gaccttaaaaaatagctgctgcaatgtgttttagctaatttttg--ttagctgatatattgttggccatattttgaatctaagcaa-tatttaaatggtacagAACATCTAAGGAGATATCAGATTTAGAGGGGGAGCTTTCATCTATTAGAAACCTGCTCTCCACACAAGCTGCCTTGATACATGGTTTGGCTGAAGGAGTT
||| | | || | ||| | || | || |||| | || ||| || | || || || | || || | |||||||||||||| |||||||||||||| | || |||||||| ||| ||||||| |||| ||||| | || || || |||||| || ||||||| |||
--acttctctagtttctattttaat-tacttcatgtacttttccgttccacttcccaattcatgaatttgggatgcatttatgaaactaatctcctggtacagAACATCAAAGGAGATATCAGACCTTGAAGGGGAGCTACTATCAGTTAGAAATTTGCTAAGTACACAGTCAGCTTTAATTCATGGTCTGTCTGAAGGGGTT
upper sequence: GLYMA07G00570.2 (Glycine max), 3'ss of exon 4
lower sequence: AT5G49830.1 (Arabidopsis thaliana), 3'ss of exon 2
---gaccttaaaaaatagctgctgcaatgt-gttttagctaatttttgttagctgatatattgttggccatattttgaatctaagcaatatttaaatggtacagAACATCTAAGGAGATATCAGATTTAGAGGGGGAGCTTTCATCTATTAGAAACCTGCTCTCCACACAAGCTGCCTTGATACATGGTTTGGCTGAAGGAGTT
| || | || || || | | || || ||| || || || || | || || ||| || | | | || ||| |||||||| |||||||||||| | ||||||||||| |||||||| ||||| || |||||||| || || | | || ||||| || || || ||||||
tttgcgttttgcatatgacttctttttcctcgcactaccttattgttttttcttggcg----gtgtgttattttgaaaattaaacttttttctgttctgtgcagCACATCTAAAGAGATATCAGATCTTGAGGGGGAGCTATCATCTATCAGAAATCTTCTCTCCACTCAGGCGACTCTAATCCATGGCTTAGCAGATGGAGTT
upper sequence: GLYMA07G00570.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 2
gaccttaaaaaatagctgctgcaatgtgttttagctaatttttgttagctgatatattgttggccatattttgaat-ctaagcaatatttaaatggta----cagAACATCTAAGGAGATATCAGATTTAGAGGGGGAGCTTTCATCTATTAGAAACCTGCTCTCCACACAAGCTGCCTTGATACATGGTTTGGCTGAAGGAGTT
| | | || || ||| |||| || | | | | |||| | | | | || | || ||| || | || | ||| ||| ||||| || |||||||||||||||||||| ||||||| ||| || ||||||||||| || || || | | ||| || |||||||| |||||||||||
--ataccagtattttctactttcatg-gtttgagt--gtgtgcatatgttgattattggcttgattcatcctcgatgttaaatgatctgcaatttgtatctacagCACATCAAAAGAGATATCAGATTTAGAGGGAGAGCTTTTATCCATCAGAAACCTGCTATCTACTCAGTCAGGCTTAATTCATGGTTTAGCTGAAGGAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagctgatatattgttggccatattttgaatctaagcaatatttaaatggtacagAACATCTAAGGAGATATCAGATTTAGAGGGGGAGCTTTCATCTATTAGAAACCTGCTCTCCACACAAGCTGCCTTGATACATGGTTTGGCTGAAGGAGTT
agctgat putative branch site (score: 4)
atattttgaatctaag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaccttaaaaaatagctgctgcaatgtgttttagctaatttttgttagctgatatattgttggccatattttgaatctaagcaatatttaaatggtacagAACATCTAAGGAGATATCAGATTTAGAGGGGGAGCTTTCATCTATTAGAAACCTGCTCTCCACACAAGCTGCCTTGATACATGGTTTGGCTGAAGGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG