Sequence
atgc intronic sequence ATGC exonic sequence...atttgtttaataaattgatacctagtaataagtactaactactaaacaataagggaatggacctaaaatctattataatcctttatttgaaatgctacagTCTTCAGGGAAAGTCTCAAATTGTTCAGGAAGAGTTAGTGAAGTTTGGTGAACAAATGGTTAGTAGTTCTGAAGGTACAAGAGCTCTAGCCTTGCAGTTG
Basic information
species | Glycine max |
transcript | GLYMA07G40300.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G40300.2 (Glycine max), 3'ss of exon 7
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 7
-------atttgttta-ataaattgatacctagtaataagtactaactactaaacaataagggaatggacctaaaatctattataatcctttatttgaaatgctacagTCTTCAGGGAAAGTCTCAAATTGTTCAGGAAGAGTTAGTGAAGTTTGGTGAACAAATGGTTAGTAGTTCTGAAGGTACAAGAGCTCTAGCCTTGCAGTTG
| | | | ||| | | | | | || || || | || || | | ||| | | ||| | | || | ||||| || ||||| ||||||||||| || ||||| ||| ||| || | ||||||||||| | |||| ||| ||||||||||||| ||| |||| ||| || |
gtattgcttctctccatatatgtgctttcttcatgatttttattatggtgttggca-tatgacattggttgcttgaacgcatatggctttcaaattct--ttgtacagGCTCCAGGGTAAGTCTCAAATAGTGCAGGATGAGCTAGCGAGGCTTGGTGAACAACTAGTTAACAGTGCTGAAGGTACAAGGGCTATAGCTTTGGAGCTT
upper sequence: GLYMA07G40300.2 (Glycine max), 3'ss of exon 7
lower sequence: AT1G59610.1 (Arabidopsis thaliana), 3'ss of exon 7
atttgtttaataaattgatacctagtaataagtactaactactaaacaataagggaatggacctaaaatctattataatcctttatttg-aaatgc----------tacagTCTTCAGGGAAAGTCTCAAATTGTTCAGGAAGAGTTAGTGAAGTTTGGTGAACAAATGGTTAGTAGTTCTGAAGGTACAAGAGCTCTAGCCTTGCAGTTG
| || | || | || || | || | | | || || ||| | ||| ||| |||| | || |||| | | ||| || ||||| ||||||||||| || ||||| || |||| || | ||||||| ||| ||||||| ||| ||||||| ||||| || |||| ||| || |
-------tgatg--tctatcttttgttttagtttctggatgattatt--tagggacatgattttggttcttatgatagtcctgaacttacaaattcctttgttacatgcagACTCCAGGGTAAGTCTCAAATAGTGCAGGACGAATTAGCGAGGCTTGGTGAGCAATTGGTTAGCAGTGCTGAAGGCACAAGGGCAATAGCTTTGGAGCTT
upper sequence: GLYMA07G40300.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 7
-atttgt-ttaataaattgatacctagtaataagtactaactactaaacaataagggaa--tggacctaaaatctattataatcctttatttgaaatgctacagTCTTCAGGGAAAGTCTCAAATTGTTCAGGAAGAGTTAGTGAAGTTTGGTGAACAAATGGTTAGTAGTTCTGAAGGTACAAGAGCTCTAGCCTTGCAGTTG
| | | | ||| ||| | | | | | | | | | || || ||| | | || | | | ||||| | | || ||| ||||||||||||||||||||||||||||| || ||||| | | ||||||||||||||||| ||| ||| || ||||| ||| | || |||||| |
aacccatgctgctgaatggatgcatgttggtggttttagcatgcatatttcttagtcaacttgggcttttgatatgctc--agtcttta--caacactctgcagGCTTCAGGGAAAGTCTCAAATTGTTCAGGAGGAATTAGTCAGGCTTGGTGAACAAATGGTTGACAGTGTTGAGGGCACAAGGGCTATTGCTTTGCAGCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaataagggaatggacctaaaatctattataatcctttatttgaaatgctacagTCTTCAGGGAAAGTCTCAAATTGTTCAGGAAGAGTTAGTGAAGTTTGGTGAACAAATGGTTAGTAGTTCTGAAGGTACAAGAGCTCTAGCCTTGCAGTTG
acctaaa putative branch site (score: 3)
taaaatctattataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttgtttaataaattgatacctagtaataagtactaactactaaacaataagggaatggacctaaaatctattataatcctttatttgaaatgctacagTCTTCAGGGAAAGTCTCAAATTGTTCAGGAAGAGTTAGTGAAGTTTGGTGAACAAATGGTTAGTAGTTCTGAAGGTACAAGAGCTCTAGCCTTGCAGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - -tgatacc
- - - - - - - - - - - - - - - - - - - - -ctaaaca