Sequence
atgc intronic sequence ATGC exonic sequencegtagaaattttttacatattcactgtttattttatcatttattattttaaaaattgataggtctctggctcttttatctcactgacatgtttacttgtcttcacgcgaacagTATGGGCGTCCACTGTATGGAGATGTTTTTGGTGTTCAACAACAAGATCAGCCCAACTATGAG
Basic information
species | Glycine max |
transcript | GLYMA15G07760.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G132060_T01 (Zea mays), 3'ss of exon 9
gtagaaattttttacatattcactgtttattttatc-atttattattttaaaaattgataggtctctggctcttttatctcactgacatgtttacttgtcttcacgcgaacagTATGGGCGTCCACTGTATGGAGATGTTTTTGGTGTTCAACAACAAGATCAGCCCAACTATGAG
| | | || ||| | | ||| | | | ||| | | || | ||| | | || | || | || ||||| |||| |||||||| |||||||| ||||||||||||| || || || | || ||||| ||
----------------------gtatgttttctattgaaacctcgctttgacactgtctagatgtactcaaggttcctttcatgagctcttgtattgttcctt--gccaacagCATGGACGTCCACTCTATGGAGACGTTTTTGGTGTTCTGCAGCAGGACGAACCTAACTACGAT
upper sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G21660.2 (Arabidopsis thaliana), 3'ss of exon 10
gtagaaattttttacatattcactgtttattttat-catttattattttaaaaattgataggtctctggct--cttttatctcactgacatgtttacttgtcttcacgcgaacagTATGGGCGTCCACTGTATGGAGATGTTTTTGGTGTTCAACAACAAGATCAGCCCAACTATGAG
|| || | ||| || | | |||| | |||| | ||| || | | || ||||||| | | | | ||| | || | | |||||||||||||| |||||||||||||||||||||| || |||||||||||||| ||||| |||
---------------gtaagcatttttttttatctacattcttcttttttattatttctatgccatctactaacttttatttttttcccgttctta-tcgtttgtgt-tacatagTATGGGCGTCCATTGTATGGAGATGTTTTTGGTGTCCAGCAACAAGATCAGCCTAACTACGAG
upper sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 2
gt-agaaattttttacatattcactgtttattttatcatttattattttaaaaattgataggtctctggctcttttatctcactgacatgtttacttgtcttcacgcgaacagTATGGGCGTCCACTGTATGGAGATGTTTTTGGTGTTCAACAACAAGATCAGCCCAACTATGAG
|| || | ||| ||| | ||| | |||| | ||| || | | || | | ||| | | |||| |||| |||| |||| | || |||||||||| ||| ||||||||||||||||||||||||| |||||||| || || |||||||||
gtgagttactttcatcatgtagactaatctatttacccttttttttgtactgaaatatca--tctatcattattttcagattctgattattttatttgtacttcgttaaatagTATGGGCGACCATTGTATGGAGATGTTTTTGGTGTTCAGCAACAAGAACAACCAAACTATGAG
upper sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S505_13V6.1 (Physcomitrella patens), 3'ss of exon 10
gtagaaattttttacatattcactgtttattttatcatttattattttaaaaattgataggtctctggctcttttatctcactgacatgtttacttgtcttcacgcgaacagTATGGGCGTCCACTGTATGGAGATGTTTTTGGTGTTCAACAACAAGATCAGCCCAACTATGAG
|| | || || || || | |||| || | || | ||| || | ||| | |||| | | ||| | ||| | ||||||||||| || ||||||||||||| ||||||||||| || || | | || ||||
--tgagtctggttggcaatacag---ttgtgttatagattttcatct-----atttctata-cgctgaaattgggatcttgtttaaccaattagt-atctgtggggctgcagTATGGGCGACCCTTGTATGGAGATGTATTTGGTGTTCAGCACGTGGAGCTTGATACCTTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taggtctctggctcttttatctcactgacatgtttacttgtcttcacgcgaacagTATGGGCGTCCACTGTATGGAGATGTTTTTGGTGTTCAACAACAAGATCAGCCCAACTATGAG
cactgac putative branch site (score: 2)
tcttcac putative PPT
tcttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagaaattttttacatattcactgtttattttatcatttattattttaaaaattgataggtctctggctcttttatctcactgacatgtttacttgtcttcacgcgaacagTATGGGCGTCCACTGTATGGAGATGTTTTTGGTGTTCAACAACAAGATCAGCCCAACTATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA