Sequence
atgc intronic sequence ATGC exonic sequencegtataatataacactcctcgctcgctgtgactagtgattgcgaaacgcgcgttttgagtgtcgtttttgagtttttttcgcgttttgcagAGCGGTGTGAACAAGCTCGCGGATCTGGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTA
Basic information
species | Glycine max |
transcript | GLYMA08G18760.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G18760.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g01280.1 (Oryza sativa), 3'ss of exon 2
-------gtataatataacactcctcgctcgc-tgtgactagtgattgcgaaacgcgcgttttgagtgtcgtttttgagtttttttcgcgttttgcagAGCGGTGTGAACAAGCTCGCGGATCTGGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTA
||| | | ||| | | || || || ||| | | | | || ||||| | ||| || | || | | | |||| || || || ||||| || ||||| ||||| ||||| |||||||| || ||| | |||||||| || |||||||||||||| || || ||||| || |
gtgagttgtacattctaataatttctactagcatgatgctatcatctataacatcaac-ttctgagt------tgtgacttctattttc-tatgacagAATGGAGTCAATAAGCTTGCTGATCTCGTTGGAGTCACCCTTGGTCCAAAAGGACGGAATGTTGTCCTTGAGAGCAAGTATGGATCACCTAAAATTGTCA
upper sequence: GLYMA08G18760.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G015989_T02 (Zea mays), 3'ss of exon 2
----------------gtataatataacactcctcgctcgctgtgactagtgattgcgaa-acgcgcgttttgagtgtcgtttttgagtttttttcgcgttttgcagAGCGGTGTGAACAAGCTCGCGGATCTGGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTA
||| ||||| || | || | || | | || | | | | ||| | || || | ||||| | | |||| || || |||||||| || ||||| || ||||| || ||||| || ||||| ||||||| || ||||| |||||||||||||| || ||||| || |
gtgagttttctgacaaacatataataacgcttgactaaggccgccgctgctcctcacgttcaagtgtgcgttgcacttacttattacttgattttcctatgt--cagAATGGGGTCAACAAGCTTGCAGATCTCGTCGGGGTTACTCTTGGACCAAAGGGGCGAAATGTAGTCCTCGAAAGCAAGTATGGCTCACCTAAAATTGTCA
upper sequence: GLYMA08G18760.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G55490.2 (Arabidopsis thaliana), 3'ss of exon 2
gtataatataacactcctcgctcgctgtgactag--tgattgcgaaacgcgcgttttgagtgt-cgtttt-tgagtttt----tttcgcgttttgcagAGC-GGTGTGAACAAGCTCGCGGATCTGGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTA
||| | ||| | | | | | ||| | |||| | | | || | | |||| || | ||| ||| | ||| | | || ||||| ||||||||||| ||||| ||||| || || ||||| ||||| ||| ||||||||||||| |||||||||||||| || || ||| ||||
gta-agtatcttttttaaaaaaagttaatggaaacttcattcccaaaccggagctaaaggtttacattttctgtggtttctaattttgtgttgtactagGCTGGTGTCAACAAGCTCGCAGATCTTGTTGGTGTTACACTTGGACCCAAAGGACGAAATGTTGTTCTTGAGAGCAAGTATGGATCACCACGAATTGTTA
upper sequence: GLYMA08G18760.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G13470.1 (Arabidopsis thaliana), 3'ss of exon 2
gtataatataacactcctcgctcgctgtgactagtgattgcgaaacgcgcgttttgagtgtcgtttttgagtttttttcgcgttttgcagAGCGGTGTGAACAAGCTCGCGGATCTGGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTA
|| | ||| | | ||| || || ||||| || |||||| | | |||| ||| || | ||| | ||| ||||| |||||||||||||| || ||||| ||||| ||||| || || || |||||||||||||| |||||||||||||| || || | ||| ||||
gtgagaattaatgaat-tgattttctg-gagtaatgattagga----ttcgttttatttttggtttctga-ttactcgtttgttat-tagACTGGTGTTAACAAGCTCGCGGACCTTGTTGGTGTCACACTTGGACCAAAAGGGAGAAATGTTGTTCTTGAGAGCAAGTATGGATCCCCAAGAATTGTTA
upper sequence: GLYMA08G18760.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ16507 (Selaginella moellendorffii), 3'ss of exon 1
gtataatataacactcctcgctcgctgtgactagtgattgcgaaacgcgcgttttgagtgtcgtttttgagtttttttcgcgttttgcagAGCGGTGTGAACAAGCTCGCGGATCTGGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTA
| | | || ||| || || | | |||| | | ||| ||| | || | | ||||| || ||| || |||||||||||||||||||| ||||| || || | |||||||| ||||| ||||| || |||||||| |||||||| || || || || | |
---gtttgcagaaaagctttctctctcggattggc-attgggccattggcg-----agtttttcttatcgggtttttgcgaa----acagGCTGGAGTGAACAAGCTCGCGGATCTTGTTGGAGTGACTTTGGGTCCCAAAGGAAGGAATGTCGTCCTCGAGAGTAAGTATGGTTCTCCAAAGATTATCA
upper sequence: GLYMA08G18760.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ33580 (Selaginella moellendorffii), 3'ss of exon 1
gtataatataacactcctcgctcgctgtgactagtgattgcgaaacgcgcgttttgagtgtcgtttttgagtttttttcgcgttttgcagAGCGGTGTGAACAAGCTCGCGGATCTGGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTA
|| || || |||||| | | ||| | | |||| ||| | | | || |||| ||||| | || || | || || || || | ||||||||||||||||| || || ||||||||||||||||| || || || || || |
------------------------gtgagattatggattgctggatgga----ttggtt--tgattttaagtctccct-----ataatagGCTGGTGCAAACAAAGTGGCCAATTTAGTGGGAGTTACTTTGGGTCCCAAGGGAAGAAACGTGGTGCTCGAGAGCAAGTATGGATCTCCAAAGATTGTCA
upper sequence: GLYMA08G18760.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ32217 (Selaginella moellendorffii), 3'ss of exon 1
gtataatataacactcctcgctcgctgtgactagtgattgcgaaacgcgcgttttgagtgtcgtttttgagtttttttcgcgttttgcagAGCGGTGTGAACAAGCTCGCGGATCTGGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTA
|| | || || | ||| || || | | |||| | | ||| ||| | || | ||||| || ||| || |||||||||||||||||||| ||||| || || | |||||||| ||||| ||||| || ||||||||||||||||| || || || || | |
gtttgcagaaaagcttc---ctctctcggattggc-attgggccattggcg-----agtttttcttatcgactttttgcgaa----acagGCTGGAGTGAACAAGCTCGCGGATCTTGTTGGAGTGACTTTGGGTCCCAAAGGAAGGAATGTCGTCCTCGAGAGCAAGTATGGTTCTCCAAAGATTATCA
upper sequence: GLYMA08G18760.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ36935 (Selaginella moellendorffii), 3'ss of exon 1
gtataatataacactcctcgctcgctgtgactagtgattgcgaaacgcgcgttttgagtgtcgtttttgagtttttttcgcgttttgcagAGCGGTGTGAACAAGCTCGCGGATCTGGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTA
| || | | ||| | | ||| ||| | || | || |||| |||||| | || ||| | || || || || | ||||||||||||||||| || || ||||||||||||||||| || || || || || |
---------------------------------------gtgagat-tatggattgctggatggatttaagtctcctt-----ataatagGCTGGTGCGAACAAAGTGGCCGATTTAGTGGGAGTTACTTTGGGTCCCAAGGGAAGAAACGTGGTGCTCGAGAGCAAGTATGGATCTCCAAAGATTGTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattgcgaaacgcgcgttttgagtgtcgtttttgagtttttttcgcgttttgcagAGCGGTGTGAACAAGCTCGCGGATCTGGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTA
tttttttcgcgtttt CT-rich tract
tttttgagttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataatataacactcctcgctcgctgtgactagtgattgcgaaacgcgcgttttgagtgtcgtttttgagtttttttcgcgttttgcagAGCGGTGTGAACAAGCTCGCGGATCTGGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG