Sequence
atgc intronic sequence ATGC exonic sequencegtatgaaccttatacaacatgtaagtttacttgttgagttttactttagaggcacttatcttaaatttcaaagcagGTTTATGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCCATCACCAAGTCTGCCCGCTCTTCC
Basic information
species | Glycine max |
transcript | GLYMA13G42650.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G42650.1 (Glycine max), 3'ss of exon 18
lower sequence: AT1G72960.1 (Arabidopsis thaliana), 3'ss of exon 16
--gtatgaaccttatacaacatgtaagtttacttgttgagttttactttagagg--cactta-tcttaaatttcaaag-----------cagGTTTATGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCCATCACCAAGTCTGCCCGCTCTTCC
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gtatagcaaggcttcttaatgtgcccagtgatctttcaaaaccagtttcaaacaaccatttaatcttgaatctggttgtaattttttttcagGTTTGGTACAATCTTCAGCCATGATTCTGATTCAATGCCACGTGTTTGGACCGGAAAAGAGGATCTTCGAGCAATTACTAAATCAGCTCGATCTGCT
upper sequence: GLYMA13G42650.1 (Glycine max), 3'ss of exon 18
lower sequence: AT3G13870.1 (Arabidopsis thaliana), 3'ss of exon 17
-----------gtatgaaccttatacaacatgtaagtttacttgttgagttttactttagaggcacttatct---taaatttcaaagcagGTTTATGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCCATCACCAAGTCTGCCCGCTCTTCC
|| ||| | | | || | | | | | |||| | | ||| ||| | ||| ||| ||| | || || |||||||||||||||||||| ||| ||||||| ||||| || || | |||| || || || || || ||| |
gtgtcaccattttacttgtctttcatcatttccttgtccgataacttccatctcttacagagctttctgattaaacaaacttctatccagATTTGCTACAATCTTCAGCCATGATTCTGATTCAATGCCACGTGTTTGGACTGGAAAGGAGGACATCAGAGCAATTACAAAAATGGCTCGTTCTGCG
upper sequence: GLYMA13G42650.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 3'ss of exon 17
---------------------------------------------gtatgaaccttatacaacatgtaagtttact-tgttgagttttactttagaggcacttatcttaaatttcaaagcagGTTTATGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCCATCACCAAGTCTGCCCGCTCTTCC
| | | ||| | | || | |||| ||| | || | || | || ||| | | |||||||| |||||||||||| ||||||||||| |||||||| ||| | ||||| || ||||||||| |||| || |||||||| |||| || |||||
gttgcaactgttacattatttgaaattcttttattttccctttttatttttagattacaagaaatcgggatctactgctttggactgtatcaaatggggatggatttta---ctgcatgcagGTTTGCGACATTGTTTAGCCATGATTCTGACTCAATGCCACGTGTCTGGACTGGGAAAGAAGATATTCGTGCAATCACCAAAACTGCTCGTTCTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taagtttacttgttgagttttactttagaggcacttatcttaaatttcaaagcagGTTTATGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCCATCACCAAGTCTGCCCGCTCTTCC
ttatcttaaatttcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaaccttatacaacatgtaagtttacttgttgagttttactttagaggcacttatcttaaatttcaaagcagGTTTATGACATTGTTTAGTCATGATTCTGATTCAATGCCTCGTATTTGGACGGGAAAAGAAGATGTTCGAGCCATCACCAAGTCTGCCCGCTCTTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG