Sequence
atgc intronic sequence ATGC exonic sequence...ccttccagactttcgtcgaatgatggtttccttaccattcttaaatttttattactcacagtatatatattttttttctttccttaatgtctgaatgcagTTCATCACATTTGGATTTGCGTGCACCCCATTATATTTTGTGTGGGAGAAGGTGATTGGGATGCACGACACAAAGAGCATTTGGTTAAGGGCACTTGCAC
Basic information
species | Glycine max |
transcript | GLYMA03G09140.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G09140.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 7
---------------ccttccag-actttcgtcgaatgatggtttccttaccattcttaaatttttattactcacagtatatatattttttttctttccttaatgtctgaatgc---agTTCATCACATTTGGATTTGCGTGCACCCCATTATATTTTGTGTGGGAGAAGGTGATTGGGATGCACGACACAAAGAGCATTTGGTTAAGGGCACTTGCAC
| || || | ||| || || || | | | | || | || ||| | |||| || |||| || || |||| || |||||||| || || || || ||| | || || ||||||||||||||||| |||||||| ||||||| |||||| || ||||||||||| ||
gtttgtaaattaattcactcaagtgcattcaaattattttgaattattggtagacgtaatgactgacttggcctcaagatagtgaaacttttactgataaaaatgcatgggtgttgtagTTTATTACATTTGGGTTCGCATGTACGCCACTGTACTTCGTGTGGGAGAAGGTGATAGGGATGCATGACACAAGGAGCATCTGTTTAAGGGCACTGGCCA
upper sequence: GLYMA03G09140.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S211_67V6.1 (Physcomitrella patens), 3'ss of exon 6
--------------------ccttccagact-ttcgtcga------atgatggtttccttaccatt----cttaaatt-tttattactcacagtatatatatttt-------ttttctttccttaatgtctgaatgcagTTCATCACATTTGGATTTGCGTGCACCCCATTATATTTTGTGTGGGAGAAGGTGATTGGGATGCACGACACAAAGAGCATTTGGTTAAGGGCACT-TGCAC
|| | ||| |||||||| || | | || | | | || || | ||| | || || | | | | | | || ||| ||||||||||||| |||| ||||| ||| ||||| || || ||||||||||||||||| ||||| ||| |||| ||||| || || || || | |||
gtactcaaggcacccatcattctaaaaaactattcgtcgatgtgccatattaatcctctgaacgtcaggactgaagctacttactgtggacgaagcatcttctctgaagggtctaacgacattgaaaatcttgctgcagTTCATCACTGTTGGCTTTGCCGTCACTCCATTGTACTTCGTGTGGGAGAAGGTGATCGGGATTCACAACACGAAGAGTCTTCCCTTGAGAGCGGTATGCC- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttattactcacagtatatatattttttttctttccttaatgtctgaatgcagTTCATCACATTTGGATTTGCGTGCACCCCATTATATTTTGTGTGGGAGAAGGTGATTGGGATGCACGACACAAAGAGCATTTGGTTAAGGGCACTTGCAC
ttttttttctttcctt CT-rich tract
agtatatatatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttccagactttcgtcgaatgatggtttccttaccattcttaaatttttattactcacagtatatatattttttttctttccttaatgtctgaatgcagTTCATCACATTTGGATTTGCGTGCACCCCATTATATTTTGTGTGGGAGAAGGTGATTGGGATGCACGACACAAAGAGCATTTGGTTAAGGGCACTTGCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
ccttcca
- - - - - - - - - - -gatggtt
- - - - - - - - - - - - - - -ccttacc
- - - - - - - - - - - - - - - - - - - - - - - - - - -actcaca