Sequence
atgc intronic sequence ATGC exonic sequencegttggtagcagtagttttattcaaatttgattttttttttattactttccaatcaatatgacaaactatgatgaaaattttagGTGTTAGGCAAGATGGAAGTGCTTCCCACTTCTTCCATAGAGCAATCAAGGCTTACAACACGGGCACCCGAAAGCGCCGAAAAATACTAGGGCAAGATTT
Basic information
species | Glycine max |
transcript | GLYMA02G11140.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G11140.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G311974_T01 (Zea mays), 3'ss of exon 4
--------gttggtagcagtagttttattcaaatttgattttttttttattactttccaatcaatatgacaaactatgatgaaaattttagGTGTTAGGCAAGATGGAAGTGCTTCCCACTTCTTCCATAGAGCAATCAAGGCTTACAACACGGGCACCCGAAAGCGCCGAAAAATACTAGGGCAAGATTT----
|| | | |||| | | | ||| | ||| ||| | |||| | | ||| || || || ||||||||||||||||||| |||| || |||||||||||||| | || | |||| || | | | | | || | || | || |||
gtatttaattttattgaagtaacatcacacctgttttggcatcatttacttatatgtcaatgccttttacagtttaactgcaatcttgcagGTGTTAGGCAAGATGGACGTGCATCATACTTCTTCCATAGAAGTTTTGAGCCCTACATCAATGAGA----ATGATGTAAATAACTGCTGGAAGAAAATTGGAAG
upper sequence: GLYMA02G11140.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0011g02990.t01 (Vitis vinifera), 3'ss of exon 3
gttggtagcagtagttttattcaaatttgattttttttttattactttccaatcaatatgacaaactatgatgaaaatttt--------------------agGTGTTAGGCAAGATGGAAGTGCTTCCCACTTCTTCCATAGAGCAATCAAGGCTTACAACACGGGCACCCGAAAGCGCCGAAAAATACTAGGGCAAGATTT
| | | | || | || | | |||| || ||| | ||| || | | ||| ||| | || |||||| | ||||||||||||||| | ||||| || ||| ||||||||||||||| || || || || |||||||| ||||| |||| || | | |||
-cttttggtgtccctctttactatatatactacttttctt--tacctatcaaaaaaaaaaaaaaaacttgagctttttcttttctttttctttttttaaaaagGTGTAAAGCAAGATGGAAGTGCAGCTCACTTTTTTCATCAAGCAATCAAGGCTTATAATACTGGAACTCGAAAGCGTCGAAAGATACATGGTGATGTTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattttttttttattactttccaatcaatatgacaaactatgatgaaaattttagGTGTTAGGCAAGATGGAAGTGCTTCCCACTTCTTCCATAGAGCAATCAAGGCTTACAACACGGGCACCCGAAAGCGCCGAAAAATACTAGGGCAAGATTT
atttgat putative branch site (score: 5)
tttttttattacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtagcagtagttttattcaaatttgattttttttttattactttccaatcaatatgacaaactatgatgaaaattttagGTGTTAGGCAAGATGGAAGTGCTTCCCACTTCTTCCATAGAGCAATCAAGGCTTACAACACGGGCACCCGAAAGCGCCGAAAAATACTAGGGCAAGATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA