Sequence
atgc intronic sequence ATGC exonic sequence...tgtttgttttagccactatctgctgatcctcttttatacctatcaaataattgtaaaaggaaaaattgtgtgtaatctaatggaagttccgtcatttcagGTTGCAACCTTTATAGTTCAAAAAATTCTGTTGGACGAAATGGGTTTGAAATATATTTGCACTACAGCAGAGCGCTTTTATGCAGTAGGTCGAGTTTTGG
Basic information
species | Glycine max |
transcript | GLYMA02G46250.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G46250.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G20800.1 (Arabidopsis thaliana), 3'ss of exon 6
tgtttgttttagccactatctgctgatcctcttttatacctatcaaa--taattgtaaaaggaaaaattgtgtgtaatctaatggaagttccgtcatttcagGTTGCAACCTTTATAGTTCAAAAAATTCTGTTGGACGAAATGGGTTTGAAATATATTTGCACTACAGCAGAGCGCTTTTATGCAGTAGGTCGAGTTTTGG
| | | | | | || || | | | || || | |||| || | || | | | || | | | || ||||| ||||| ||||| |||||||| || |||||||| || |||| || | || || ||||| ||||||||||| |||| |||||| |||||||| ||||
--tccatagaaccagttctgcgccaatgaaatggtgtctacattgaaactcattgaaagtgtgcaaccccttgcttacgtattaacataatgttaatgacagGTGGCAACATTTATTGTTCAAAAGATACTGTTGGATGATGTGGGGATGGATTACATCTGCACAACAGCAGAGCGGTTTTTTGCAGTTGGTCGAGTGTTGG
upper sequence: GLYMA02G46250.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv19s0090g00930.t01 (Vitis vinifera), 3'ss of exon 8
tgtttgttttagccactatctgctgatcctcttttatacctatcaaataattgtaaaaggaaaaattgtgtgtaatctaatggaag--ttccgtcatttcagGTTGCAACCTTTATAGTTCAAAAAATTCTGTTGGACGAAATGGGTTTGAAATATATTTGCACTACAGCAGAGCGCTTTTATGCAGTAGGTCGAGTTTTGG
|||| ||||| | || | | | | || | | | || | | | || | | | | ||| | | | |||||||| || ||||| |||||||||||||||||||| || |||| ||| | |||||||| ||||| |||||||| |||| ||||||||||||||||||||
-gttt-ttttaccttctctttcttattttgtttcttttttgggcttgggatcatcagcttccaggtttataagattttcactcaagggtgttatgctggcagGTTGCCACATTTATTGTTCAAAAAATTCTGTTGGATGATGTGGGCTTGGATTATATTTGTACTACGGCAGAGCGATTTTTTGCAGTAGGTCGAGTTTTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataattgtaaaaggaaaaattgtgtgtaatctaatggaagttccgtcatttcagGTTGCAACCTTTATAGTTCAAAAAATTCTGTTGGACGAAATGGGTTTGAAATATATTTGCACTACAGCAGAGCGCTTTTATGCAGTAGGTCGAGTTTTGG
atctaat putative branch site (score: 3)
ttccgtc putative PPT
taaaaggaaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttgttttagccactatctgctgatcctcttttatacctatcaaataattgtaaaaggaaaaattgtgtgtaatctaatggaagttccgtcatttcagGTTGCAACCTTTATAGTTCAAAAAATTCTGTTGGACGAAATGGGTTTGAAATATATTTGCACTACAGCAGAGCGCTTTTATGCAGTAGGTCGAGTTTTGG
tgtttgt
- - - - - -gccacta
- - - - - - - - - -ctgctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaatgg