Sequence
atgc intronic sequence ATGC exonic sequencegtatagtgtgtttttttggttagaatgcataaaaggtgttttttttttttgtaatttaaaaattttaaccaacttgttgtgttgtgttcagtgtttatttttggccacagatcagtttctttttctgggattctgagattgtttttggctttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
Basic information
species | Glycine max |
transcript | GLYMA03G28570.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G28570.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G129954_T01 (Zea mays), 3'ss of exon 2
gtatagtgtgtttttttggttagaatgcataaaaggtg-ttttttttttttgtaatttaaaaatt--ttaaccaact-tgttgtg--ttgtgttcagtgtttatttttggc--cacagatcagtttctttttctgggattctgagattgtttttggctttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
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------------------------gtaagaagaagatggcttcctcttcctagctcctacgagttggttggtcaaccgtgttgtgcactgcttgtattgtcttctcctagcgtcactagctagtcctcaagaagaggtttctgg---tgtaatcagGATGTGGCTGCCAATCAGGATGTGGCTGTGAACCTGATCATCACAGACTACTGCATGCCTGGCATGACAGGATATGACCTGCTCAAGAAGATCAAG
upper sequence: GLYMA03G28570.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G57040.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatagtgtgtttttttggttagaatgcataaaaggtgttttttttttttgtaatttaaaaattttaaccaacttgttgtgttgtgttcagtgtttatttttggccacagatcagtttctttttctgggattctgagattgtttttggctttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
|||| ||| | || ||| |||| || | ||| || |||| | || ||| | || || || |||| |||| | ||| | | | ||| || || ||||||||| | || |||||||| ||||||||||||||||| || ||||| ||||| |||||| |||||
----------------------------------------------gtttgctcttttatttttgtaaatcactttttcttctgtttttgttgttgttgtt-------------gttgttgttattgaagtt-----gttgtgtttgattggttgc-tttcaacagGTAGTTGAAGTGAATCTTATAATTACAGATTATTGTATGCCTGGCATGACTGGTTATGATTTGCTCAAGAAAGTCAAG
upper sequence: GLYMA03G28570.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G41310.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatagtgtgtttttttggttagaatgcataaaaggtgttttttttttttgtaatttaaaaattttaaccaacttgttgtgttgtgttcagtgtttatttttggccacagatcagtttctttttctgggatt---ctgagatt-gtttttggctttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
|| || | | || | || || | |||| || | || | | || ||||||| |||| | || | | | | |||| || || | ||||| | || |||||||||||||||||||||||||| || ||||| ||||| |||||| | |||
------------------------------------------------------------------gttcagtttttgatctttta--catgattcaaagttggttactttcgaaatttgcaatgaatggttatattgagatttgtttgtaatttgtggcttttgagcagGAAGTTGAAATAAATCTAATAATTACAGATTACTGTATGCCTGGCATGACTGGTTATGATTTGCTCAAGAAAGTTAAG
upper sequence: GLYMA03G28570.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g05390.t01 (Vitis vinifera), 3'ss of exon 2
gtatagtgtgtttttttggttagaatgcataaaaggtgttttttttttttgtaatttaaaaattttaaccaacttgttgtgttgtgttcagtgtttatttttggccacagatcagtttctttttctgggattctgagattgtttttggctttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
|||| | | || || || | || || | | | | | || | |||| | || | || || | || | ||| ||||| || | |||| | | || || ||||| |||| ||| |||| |||| ||||||||||||||| | || || || |||||||||||||| |||||||||||||| || || || |||||||||
gtatgattcttcttcttttttccattgt-caagggtcaggaatctcaaatctttcttgaggatttc--cttacattttccctttttttt--tattttttttta------------ttattctttccgagttttctgaatcttttttcacttt--gtgaatttacagGAAGTGGAGGTGAATCTTATAATTACTGACTACTGTATGCCTGGAATGACAGGCTATGATTTACTCAAAAAAATCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagtttctttttctgggattctgagattgtttttggctttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
ctttttgtgtcttt CT-rich tract
attgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatagtgtgtttttttggttagaatgcataaaaggtgttttttttttttgtaatttaaaaattttaaccaacttgttgtgttgtgttcagtgtttatttttggccacagatcagtttctttttctgggattctgagattgtttttggctttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
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