Sequence
atgc intronic sequence ATGC exonic sequencegttagactcaccagtgtttttccatgttgaattcacattcctataggaaatttttcaaaattttgagtgttattggcttttgcttcagTTGAAGGATCTCCAGGTTTTCACCATTATCCGTGTTATATTCCAACTTGCTGATGAGATTCCCTGCATTTCTGCTGTTGTCGTTGCCCTACTTGCTGAG
Basic information
species | Glycine max |
transcript | GLYMA09G40290.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G40290.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G61050.1 (Arabidopsis thaliana), 3'ss of exon 6
-------gttagactcaccagtgtttttccatgttgaattcacattcctataggaaatttttcaaaattttgagtgttattggcttttgctt----cagTTGAAGGATCTCCAGGTTTTCACCATTATCCGTGTTATATTCCAACTTGCTGATGAGATTCCCTGCATTTCTGCTGTTGTCGTTGCCCTACTTGCTGAG
| ||| ||| ||| || | || || | || | | || | || | | | | | || || | |||||||||||||| || |||||||| || |||||||| || |||||||| ||||||||||| || || ||||||||||| ||||| ||||||||||||
gttactagagagatattttagtatttgtcgtt--tgggttgtcgtttgtgccaatagagattgagtatctctacaaacacttgtttctggctgaaacagTTGAAGGATCTTCAAGTTTTCACAGTTGCACGTGTTATCTTTCAACTTGCGGATGAGATTCCTTGTATATCTGCTGTTGTTGTTGCTCTACTTGCTGAG
upper sequence: GLYMA09G40290.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G61030.1 (Arabidopsis thaliana), 3'ss of exon 5
-------gttagac-tcaccagtgtttttccatgttgaattcacattcctataggaaatttttcaaaattttgagtgttattggcttttgctt----cagTTGAAGGATCTCCAGGTTTTCACCATTATCCGTGTTATATTCCAACTTGCTGATGAGATTCCCTGCATTTCTGCTGTTGTCGTTGCCCTACTTGCTGAG
| ||| | ||| ||| || | | || || | | || | || | | | | | || || | |||||||||||||| || |||||||| || |||||||| || |||||||| ||||||||||| | || ||||||||||| ||||| ||||| ||||||
gttactagagagatatttttagtatttgtcgtttgggttgtcgttttgtgccaaatagagattgagtatctctacaaacacttgtttctggctgaaacagTTGAAGGATCTTCAAGTTTTCACAGTTGCACGTGTTATCTTTCAACTTGCGGATGAGATTCCTCGTATATCTGCTGTTGTTGTTGCTCTACTGGCTGAG
upper sequence: GLYMA09G40290.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv15s0048g01410.t01 (Vitis vinifera), 3'ss of exon 6
----------------------gttagactcaccagtgtttttcc---atgttgaattcacattcctataggaaatttttcaaaattttgagt---gttattg-gct-tttgcttcagTTGAAGGATCTCCAGGTTTTCACCATTATCCGTGTTATATTCCAACTTGCTGATGAGATTCCCTGCATTTCTGCTGTTGTCGTTGCCCTACTTGCTGAG
|| | || | | || || | |||| || | | || | | ||||| | ||||||| ||| || || ||||||||||||||||| |||||||| || |||||||| ||||||||||| || ||||| || || |||||||||||| | ||||| |||||| |||||
gttggtgaattattctttccttctttgttccatagtttccatgcctggatatcattttcaaatcctagcatacaacatagatgtaatttgaatcttgttattgtgctgctttctgcagTTGAAGGATCTCCAAGTTTTCACTGTTGCTCGTGTTATCTTCCAACTTGCAGAAGAGATACCTTGTATTTCTGCTGTTATTGTTGCTCTACTTTCTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacattcctataggaaatttttcaaaattttgagtgttattggcttttgcttcagTTGAAGGATCTCCAGGTTTTCACCATTATCCGTGTTATATTCCAACTTGCTGATGAGATTCCCTGCATTTCTGCTGTTGTCGTTGCCCTACTTGCTGAG
cttttgcttc CT-rich tract
aaatttttcaaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagactcaccagtgtttttccatgttgaattcacattcctataggaaatttttcaaaattttgagtgttattggcttttgcttcagTTGAAGGATCTCCAGGTTTTCACCATTATCCGTGTTATATTCCAACTTGCTGATGAGATTCCCTGCATTTCTGCTGTTGTCGTTGCCCTACTTGCTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT