Sequence
atgc intronic sequence ATGC exonic sequencegttaaaacattatgcctaattagtcttacatgcatcctttcattcatttttcattctgttcaaagtgcagtggtaaaatgtgtttatagaaaatagaaaactttttatctcacgattttgcgtgtatttgatcttcagGCAGTGCACCCCTCACAGCTGTTCAACTTTTGTGGGTGAACATGATAATGGACACTCTAGGAGCACTTGCACTTGCAACTGAACCACCAACTGATGATTT
Basic information
species | Glycine max |
transcript | GLYMA05G22420.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G22420.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g10640.1 (Oryza sativa), 3'ss of exon 5
gttaaaacattatgcctaattagtcttacatgcatcctttcattcatttttcattctgttcaaagtgcagtggtaaaatgtgtttatagaaaatagaaaact--ttttatctcacgattttgcgtgtatttgatcttcagGCAGTGCACCCCTCACAGCTGTTCAACTTTTGTGGGTGAACATGATAATGGACACTCTAGGAGCACTTGCACTTGCAACTGAACCACCAACTGATGATTT
| | | | | | | || || ||| | || | | || | || | | || || || | | | | ||| |||||| ||||| || || || ||||| ||||| | ||||| |||||||| |||||||| ||||||||||| ||| | ||||||||||| |||| ||||| |
---------------------------------------taaactaacataaaatttatt-aatgtggaaaatcaagaatttcctagtttgtttcataacttactcttgactgttctttgtacttctgcttggcattcagGGAGTGCTCCTCTTACTGCTGTCCAACTGCTCTGGGTTAACATGATCATGGACACACTAGGAGCACTGGCATTGGCAACTGAACCTCCAAACGATGAACT
upper sequence: GLYMA05G22420.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G37640.1 (Arabidopsis thaliana), 3'ss of exon 5
gttaaaacattatgcctaattagtcttacatgcatcctttcattcatttttcattctgttcaaagtgcagtggtaaaatgtgtttatagaaa--atagaaaactttttatctcacgattttgcgtgtatttgatcttcagGCAGTGCACCCCTCACAGCTGTTCAACTTTTGTGGGTGAACATGATAATGGACACTCTAGGAGCACTTGCACTTGCAACTGAACCACCAACTGATGATTT
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-------------------------------------------------gtaggtttagtaagaatac--caattcaatgtctcgaaaagaatcattttggattccttgtttgacacagct-cttatgat-aatcttcagGAAGTGCTCCTTTAACTGCTGTTCAATTGTTGTGGGTGAACATGATCATGGACACACTTGGAGCTCTTGCTTTAGCTACAGAGCCACCAAACGACGAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatagaaaatagaaaactttttatctcacgattttgcgtgtatttgatcttcagGCAGTGCACCCCTCACAGCTGTTCAACTTTTGTGGGTGAACATGATAATGGACACTCTAGGAGCACTTGCACTTGCAACTGAACCACCAACTGATGATTT
tcttc CT-rich tract
aaaatagaaaactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaaaacattatgcctaattagtcttacatgcatcctttcattcatttttcattctgttcaaagtgcagtggtaaaatgtgtttatagaaaatagaaaactttttatctcacgattttgcgtgtatttgatcttcagGCAGTGCACCCCTCACAGCTGTTCAACTTTTGTGGGTGAACATGATAATGGACACTCTAGGAGCACTTGCACTTGCAACTGAACCACCAACTGATGATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA