Sequence
atgc intronic sequence ATGC exonic sequence...gcttccaattttttaatccatctgattagcgtgacattcatagacaaacacatagtcaccatatatgggattaataattgctgtaaatgtttctatgcagGTGGTAGGAACTCCTAATTACATGTGTCCTGAACTGCTTGCTGATATTCCGTATGGATTCAAATCTGATATTTGGTCACTCG
Basic information
| species | Glycine max |
| transcript | GLYMA11G18340.1 |
| intron # | 8 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G18340.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G44200.1 (Arabidopsis thaliana), 3'ss of exon 8
gcttccaattttt-taatccatctgattagcgtgacattcatagacaaacacatagtc--accatatatgggattaataattgctgtaaatgtttctatgcagGTGGTAGGAACTCCTAATTACATGTGTCCTGAACTGCTTGCTGATATTCCGTATGGATTCAAATCTGATATTTGGTCACTCG
||| || | || | | |||| | | | | || || || |||| | | |||| || || | | | | ||| ||| |||| || |||||||| || |||||||| || ||||||||||||||||| || ||||| || || || ||||| ||||| | |
-tccataatgattattattcttaggattgctctcaagcttctgaactaatacttagtgtgatagaaaatggtgtttatgact--catggaattttatatttagGTTGTTGGAACTCCAAACTACATGTGCCCGGAACTGCTTGCTGATATCCCTTATGGTTTTAAGTCAGATATCTGGTCCTTAG
upper sequence: GLYMA11G18340.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 8
gcttccaattttttaatccatctgattagcgtgacattcatagaca-aacacatagtcaccatatatgggattaa--taattgctgtaaatgtttctatgcagGTGGTAGGAACTCCTAATTACATGTGTCCTGAACTGCTTGCTGATATTCCGTATGGATTCAAATCTGATATTTGGTCACTCG
| || | || | || | ||| ||||| ||| | || | || | | || | | | | | | ||||| || |||||||| |||||||||||||||||||| ||||| |||||||| ||||| |||||||||||||| ||||| || |
--gttgaaatcttgcctgtgcttgtcctgt-tgatattcacggacttggtaaatttgagcaatgggacacgctcacctattcatttcctacttatgtgcacagGTAGTTGGAACTCCCAATTACATGTGTCCTGAACTTCTTGCAGATATTCCTTATGGCTTCAAATCTGATATCTGGTCTCTAG
upper sequence: GLYMA11G18340.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S22_216V6.1 (Physcomitrella patens), 3'ss of exon 8
----------------------------------------------------gcttccaattttttaatccatctgattagcgtgacattcatagacaaacacatagtcaccatatatgggattaataattgctgtaaatgtttctat-gcagGTGGTAGGAACTCCTAATTACATGTGTCCTGAACTGCTTGCTGATATTCCGTATGGATTCAAATCTGATATTTGGTCACTCG
||| ||| ||| |||||| ||| ||| | || || ||| | | | ||||| | || |||| |||||| ||||| ||||| |||||||||||||| || || ||||| || || || |||||||||||||| || ||||||||| | |
gtaagtaatccgttgtgaacctcgtatcatttgcattggaatgatgatcgctgctgtgaatagtttttaccatctcgcggtcgtactgttcgtttggaagt---taatcaatccactaatggccggaacgtgctgct--tcttgctattgcagGTAGTAGGCACTCCAAATTACATGTGTCCAGAGCTACTTGCAGACATCCCATATGGATTCAAATCAGACATTTGGTCATTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaacacatagtcaccatatatgggattaataattgctgtaaatgtttctatgcagGTGGTAGGAACTCCTAATTACATGTGTCCTGAACTGCTTGCTGATATTCCGTATGGATTCAAATCTGATATTTGGTCACTCG
gattaat putative branch site (score: 3)
tgtttct putative PPT
attaataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttccaattttttaatccatctgattagcgtgacattcatagacaaacacatagtcaccatatatgggattaataattgctgtaaatgtttctatgcagGTGGTAGGAACTCCTAATTACATGTGTCCTGAACTGCTTGCTGATATTCCGTATGGATTCAAATCTGATATTTGGTCACTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
gcttcca
- - - - - - - - -ccatctg
- - - - - - - - - - - - - - - - -acattca
- - - - - - - - - - - - - - - - - - - - - - caaacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgta
