Sequence
atgc intronic sequence ATGC exonic sequence...tggggtggagccagatgaataataaaatataattttatgctagaatttggtattatctttctgcattttaaagattgttctatttgttaccctttcttagGGGATACTTCATTCTGCTCTGCATAATGAATATTGGAGACTGATAGATCCTCAAGGGAAACCAACAGGAGTGATGGGATGGTGGGCTTCTCGTGCTGTTA
Basic information
species | Glycine max |
transcript | GLYMA08G26860.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G26860.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv14s0068g00420.t01 (Vitis vinifera), 3'ss of exon 11
---tggggtg-gagccagatgaataataaaatataattttatgctagaatttggtattatctttctgcattttaaagattgttctatttgttaccctttcttagGGGATACTTCATTCTGCTCTGCATAATGAATATTGGAGACTGATAGATCCTCAAGGGAAACCAACAGGAGTGATGGGATGGTGGGCTTCTCGTGCTGTTA
|| || | | ||| | | ||| | || ||| || | || || | | | || | || | | ||||| |||| |||||||||| |||| |||| |||||||| |||||||||| |||||||||||||||| |||||||||||||| ||||||||||| |||| || ||||| |
tattgttgtttgtgtttagtgagttg-atgatactaattcatgttaccttgctacataatttctttccaaaatcaaactcacc---tatgttattcttttccagGGGATACTCCATTATGCTTTGCATAATCAATATTGGAGGTTGATAGATCCTCAAGGAAAACCAACAGGAGTAGTGGGATGGTGGCCTTCACGCGCTGTCA
upper sequence: GLYMA08G26860.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S342_20V6.1 (Physcomitrella patens), 3'ss of exon 14
-------------------------------------------------------------------------------------tggggtggagccag-atgaataataaaatataattttatgctagaatttggtattatctttctgcattttaaag--attgttcta--tttgttaccctttcttagGGGATACTTCATTCTGCTCTGCATAATGAATATTGGAGACTGATAGATCCTCAAGGGAAACCAACAGGAGTGATGGGATGGTGGGCTTCTCGTGCTGTTA
|| | || || ||| | || | || | || || || | | | || |||| ||| | || |||| |||| || | ||||| || || ||| ||||| |||||| ||||||||||||||||||||||| | ||||||||||| |||||| |||||||||| || |
gtaagtcaaatgctgctgccttgtttgactcactgtacttaatttcgtagtttttcgctaaccttttaatgtgacttgtttataatgcgcgagaatcaccgtgactcgtatcaagggtgcacgaactgataagagggatcataaaaccatcctgttcagctattgcactaaactccttcatcttttacagGGCATTTTACATTCAGCACTTCATGGTGAATTCTGGAGATTGATAGATCCTCAAGGGAAACCACCCGGAGTGATGGGCTGGTGGCCTTCTCGTGCAGTCA
upper sequence: GLYMA08G26860.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S100_191V6.1 (Physcomitrella patens), 3'ss of exon 11
tggggtggagccagatgaataataaaatataattt-tatgctagaatttggtattatct--ttctgcattttaaagattgttct-atttgttaccctttcttagGGGATACTTCATTCTGCTCTGCATAATGAATATTGGAGACTGATAGATCCTCAAGGGAAACCAACAGGAGTGATGGGATGGTGGGCTTCTCGTGCTGTTA
|| | ||| || | ||| ||| || | | || || | || | || | || || | || | |||||| ||| |||| ||| | || || ||||| ||| ||||| |||||| | |||||||||||||| |||||| | ||||||||||| |||||| |||||||||| ||||
----gtatggtaagagctatcaatttctattgtttctaagttgcaacttccttttgccaagtttaaccttatatttctcgtcttcgattgttaat-tttaacagGGCATATTGCACTCAGCTCTTCATGGTGAATTCTGGAGATTAATAGATCCTCAAGGAAAACCACCTGGAGTGATGGGTTGGTGGCCTTCTCGTGCAGTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggtattatctttctgcattttaaagattgttctatttgttaccctttcttagGGGATACTTCATTCTGCTCTGCATAATGAATATTGGAGACTGATAGATCCTCAAGGGAAACCAACAGGAGTGATGGGATGGTGGGCTTCTCGTGCTGTTA
ttctatttgttaccct CT-rich tract
attttaaagattgttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggggtggagccagatgaataataaaatataattttatgctagaatttggtattatctttctgcattttaaagattgttctatttgttaccctttcttagGGGATACTTCATTCTGCTCTGCATAATGAATATTGGAGACTGATAGATCCTCAAGGGAAACCAACAGGAGTGATGGGATGGTGGGCTTCTCGTGCTGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- gggtgga
- - - - - - - - - - aataaaa
- - - - - - - - - - - - - - - - -tttatgc