Sequence
atgc intronic sequence ATGC exonic sequencegtgatgctcatttatattttcttctttctttatgattgcaagtgagtgccagttaccatatttttttagtcttattattactattagctttgcaaatgcatatattcagGTTAGAGATGAAATAGAGCAGCTTATGGACGATGATGGTGATATGGCCGAAATGTATCTTACTGAGAAGAAAAGGCGAATGGAGTTGTCATTTTATGGAG
Basic information
species | Glycine max |
transcript | GLYMA15G00510.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G00510.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g42280.1 (Oryza sativa), 3'ss of exon 2
gtgatgctcatttatattttcttctttctttatgattgcaagtgagtgccagttaccatatttttttagtcttattattactattagctttgcaaatgcatatattcagGTTAGAGATGAAATAGAGCAGCTTATGGACGATGATGGTGATATGGCCGAAATGTATCTTACTGAGAAGAAAAGGCGAATGGAGTTGTCATTTTATGGAG
| | | | ||| ||| || | || | | || | ||| | | | | | ||| |||| |||||||| ||||||||||| |||||||| |||||||||||||| |||||||| || || |||||||| ||| | ||||| ||||| | |
-----------------------gtaaatggactgtgtcaatgtagttttgtttttggcaaacattaaattggttttcaataattggtct----atttcccccattaagGTCAGAGATGAGATAGAGCAGCTGATGGACGACGATGGTGATATGGCTGAAATGTACCTCACAGAGAAGAAGAGGAGGATGGAAGCATCATTGCTAGAGG
upper sequence: GLYMA15G00510.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g44150.1 (Oryza sativa), 3'ss of exon 2
gtgatgctcatttatattttcttctttctttatgattgcaagtgagtgccagttaccatatttttttagtc-ttattattactattagctttgcaa-atgcatatattcagGTTAGAGATGAAATAGAGCAGCTTATGGACGATGATGGTGATATGGCCGAAATGTATCTTACTGAGAAGAAAAGGCGAATGGAGTTGTCATTTTATGGAG
| || | || | ||| |||| | ||| | || | | || | || || | ||| | | ||| ||| | | |||| || ||||||||||||||||| ||||| || || || ||||||||||| |||||||| | ||||||||| | ||| |||| || || ||||| |
----------------gtatcatattgcattacgatt-----tatatgctactttctactttcagatcatcatttgaagcactgtctaatcggcattatgtctttcaatagGTCAGGGATGAAATAGAGCAGCTAATGGATGACGACGGAGATATGGCCGAGATGTATCTCAGTGAGAAGAAGTTGAGAACGGAGGCATCCTTCTATGGCG
upper sequence: GLYMA15G00510.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G064467_T01 (Zea mays), 3'ss of exon 2
gtgatgctcatttatattttcttctttctttatgattgcaagtgag-tgccagttaccatatttttttagtcttattattactattagctttgcaaatgcatatattcagGTTAGAGATGAAATAGAGCAGCTTATGGACGATGATGGTGATATGGCCGAAATGTATCTTACTGAGAAGAAAAGGCGAATGGAGTTGTCATTTTATGGAG
| ||| | || | | || | | | |||| | || || | | |||| | | | | | || |||| |||||||| |||||||| || ||||| || |||||||||||||| ||||||||||| ||||||||||| | ||||||| ||| | | | |
-----------------------gtaaaaggatggtcataatgatgcttttgcttgctgtgatcctttaatatttttctcaatatt--ccaatccattttttcacttaagGTCAGAGATGAGATAGAGCAACTGATGGATGACGATGGTGATATGGCTGAAATGTATCTCACTGAGAAGAAGATAAGAATGGAAGCATCAATGTTAGATG
upper sequence: GLYMA15G00510.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G108477_T01 (Zea mays), 3'ss of exon 2
gtgatgctcatttatattttcttctttctttatgattgcaagtgagtgccagttaccatatttttttagtcttattattactattagctttgcaaatgcatatattcagGTTAGAGATGAAATAGAGCAGCTTATGGACGATGATGGTGATATGGCCGAAATGTATCTTACTGAGAAGAAAAGGCGAATGGAGTTGTCATTTTATGGAG
|| | | || | | | |||| || ||||| | | || | ||| | | | ||||| | | || ||| |||| |||||||||||||| || || ||||| ||||||||||||||||| || |||||||| || || || || | | | ||||| | || | | ||| |
gtaaaatgtagcctaatctcgatttccctttttg-ttgcagaccatttgt-gtggtccagtttcctaaattttattgt--------gtcttccaa-----------tagGTCAGAGATGAAATAGAACAACTAATGGATGATGATGGTGATATGGCTGAGATGTATCTCACCGAAAAAAAGATGAGGATGGAATCATCTGTCTTTGGTG
upper sequence: GLYMA15G00510.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G170326_T02 (Zea mays), 3'ss of exon 2
gtgatgctcatttatattttcttctttctttatgattgcaagtgagtgccagttaccatatttttttagtcttattattactattagctttgcaaatgc-atatattc-------agGTTAGAGATGAAATAGAGCAGCTTATGGACGATGATGGTGATATGGCCGAAATGTATCTTACTGAGAAGAAAAGGCGAATGGAGTTGTCATTTTATGGAG
|| | | || | || || ||| | ||| || || | | || || || | || | | | | ||| || ||| || | ||| |||| |||||||||||||| || | ||||| ||||||||||||||||| || |||||||| || || || || | | | ||||| | || | | ||| |
gtaaaatgtagcc-taatctcgatttcttttgttgttgttgttgt-tgttgttgttgttgttgttgcagaccatttgtgtggactggttttctaattgctattttttcttccaatagGTCAGAGATGAAATAGAACAATTAATGGATGATGATGGTGATATGGCTGAGATGTATCTCACCGAAAAAAAGATGAGGATGGAATCATCTGTCTTTGGTG
upper sequence: GLYMA15G00510.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0018g00600.t01 (Vitis vinifera), 3'ss of exon 2
gtgatgctcatttatattttcttctttctttatgattgcaagtgagtgccagttaccatatttttttagtcttattattactattagctttgcaaatgcatatattcagGTTAGAGATGAAATAGAGCAGCTTATGGACGATGATGGTGATATGGCCGAAATGTATCTTACTGAGAAGAAAAGGCGAATGGAGTTGTCATTTTATGGAG
|| || | | | |||| | | | | | | || |||| | || ||| ||| | | | || | | |||| | | ||||||| ||||| |||||||| | ||||| |||||||| || ||||| ||||||||||| || |||||||||||||| ||||| | ||||| ||||| |
gtaatacatctccacatttcatcttctttgtgtcatca-aagtaaatg---gttgccaaaatcaaatttctttctggattttattgg-----------------tatagGTTAGGGATGAGATAGAGCAATTAATGGATGATGATGGAGACATGGCTGAAATGTATCTCACCGAGAAGAAAAGGCGGATGGAATCATCATTCTATGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accatatttttttagtcttattattactattagctttgcaaatgcatatattcagGTTAGAGATGAAATAGAGCAGCTTATGGACGATGATGGTGATATGGCCGAAATGTATCTTACTGAGAAGAAAAGGCGAATGGAGTTGTCATTTTATGGAG
atttttttagtcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatgctcatttatattttcttctttctttatgattgcaagtgagtgccagttaccatatttttttagtcttattattactattagctttgcaaatgcatatattcagGTTAGAGATGAAATAGAGCAGCTTATGGACGATGATGGTGATATGGCCGAAATGTATCTTACTGAGAAGAAAAGGCGAATGGAGTTGTCATTTTATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA