Sequence
atgc intronic sequence ATGC exonic sequence...ggaatagagaattataaacagtgtgatacgtacaagtttatgctttgctcttgttggtttggaactagaaaatcacgtatgtgtctcaacttttcattagGTTCAACCATGCGTTGGTATTTGGAGTGATAAATGCACTTCAAGGTTTGGCAGAAGACGACCATTCATTCTGGCAGGATCTCTTATGATATGTCTGGCT
Basic information
species | Glycine max |
transcript | GLYMA18G15950.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G15950.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g58080.1 (Oryza sativa), 3'ss of exon 2
ggaatagagaattataaacagtgtgatacgtacaagtttatgctt--tgctcttgttggtttggaactagaaa----atcacgtat--gtgtctca-acttttcattagGTTCAACCATGCGTTGGTATTTGGAGTGATAAATGCACTTCAAGGTTTGGCAGAAGACGACCATTCATTCTGGCAGGATCTCTTATGATATGTCTGGCT
|| | || | | | | ||| || || | | | || ||| ||| || ||| |||| | || || ||||||||||||| |||||| | |||||||| |||||| ||||| || ||| ||||| |||| |||||| |||| |||| | |||||||| | |||
---gtaagtttctgcaataattaaattcctcttttttttttgtttcataaccaggcatgtccaacactccaaacacaatagtatattaatgtcccgtgattctctgcagGTTCAACCATGTGTTGGTGTCTGGAGTGACAAATGCCGTTCAAAGTATGGAAGAAGGAGACCGTTCATTTTGGCTGGATGCTTGATGATATGCTTTGCT
upper sequence: GLYMA18G15950.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G145107_T01 (Zea mays), 3'ss of exon 2
ggaatagagaattataaacagtgtgatacgtacaagtttatgctttgctcttgttggt--ttggaactagaaaatcacgtatgtgtctcaacttttcattagGTTCAACCATGCGTTGGTATTTGGAGTGATAAATGCACTTCAAGGTTTGGCAGAAGACGACCATTCATTCTGGCAGGATCTCTTATGATATGTCTGGCT
|| | || | ||| | | | | | | | | | | | |||| | ||||| | ||| || ||||||||| || |||||| ||||||||||||| ||| ||||| || ||| || ||| ||||||| ||| |||| |||| | ||||||||| |||
--------------------gtaagtcaccccctccttttttttcttccttgggtcatagtcaggattagagctatgctgatgtgctgc--cttccca---gGTTCAACCTTGTGTTGGTGTTTGGAGTGATAAGTGCCGTTCAAAGTATGGGAGGAGAAGACCATTTATTTTGGCTGGATGCATAATGATATGTGCTGCT
upper sequence: GLYMA18G15950.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G02860.2 (Arabidopsis thaliana), 3'ss of exon 2
------------------------------ggaatagagaattataaacagtgtgata-cgtacaagtttatgctttgctct-tgttggtttggaa---------ctagaaaatcacgt--atgtgtctcaacttttca----ttagGTTCAACCATGCGTTGGTATTTGGAGTGATAAATGCACTTCAAGGTTTGGCAGAAGACGACCATTCATTCTGGCAGGATCTCTTATGATATGTCTGGCT
| | || | || |||| | |||| | | |||| | | | |||| | ||| || || || || | | || | |||||| || || | ||||| ||||||||||||||||| ||||||| || ||| |||||||||||||| ||||| | ||||| | ||||| | | ||
gtaggttaaaagtttctttaagaattttagcagttttactatcttgcacgtaatgatctcacgagagttcaagttttgatttatattggatcagaaactatttttctgccccattttgttcatacttatttgtttgttgggttttagGTCCAGCCTTTTGTTGGCATTTGGAGTGATAAATGTACTTCAAAGTATGGAAGAAGACGACCATTTATTCTAGTTGGATCATTCATGATCTCAATAGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctcttgttggtttggaactagaaaatcacgtatgtgtctcaacttttcattagGTTCAACCATGCGTTGGTATTTGGAGTGATAAATGCACTTCAAGGTTTGGCAGAAGACGACCATTCATTCTGGCAGGATCTCTTATGATATGTCTGGCT
cttttcatt CT-rich tract
ttttcatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggaatagagaattataaacagtgtgatacgtacaagtttatgctttgctcttgttggtttggaactagaaaatcacgtatgtgtctcaacttttcattagGTTCAACCATGCGTTGGTATTTGGAGTGATAAATGCACTTCAAGGTTTGGCAGAAGACGACCATTCATTCTGGCAGGATCTCTTATGATATGTCTGGCT
- - - - - - - - - cagtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgtg