Sequence
atgc intronic sequence ATGC exonic sequencegtatggtgtgtttttttttgttagatgcataaaggtgtttttagttttaaaattttaaccaacttgttgtgttgtgtttgtgttcagtgtttatttttggccacagatcagtttctttttctgggattctgagattgtttttggatttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
Basic information
species | Glycine max |
transcript | GLYMA19G31320.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G31320.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G129954_T01 (Zea mays), 3'ss of exon 2
gtatggtgtgtttttttttgttagatgcataaaggt----gtttttagttttaaaattttaaccaacttgttgtgttgtgt-ttgtgttcagtgtttatttttggc--cacagatcagtttctttttctgggattctgagattgtttttggatttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
|| ||| | | | | | || ||| | | || |||||||| || | | ||| | | | || ||| ||| || ||||| ||| | | | | | | |||| |||| ||||| || | || ||||| ||||| ||||||||||||||||| |||||| |||| ||||| ||||||
-------------------gtaagaagaagatggcttcctcttcctagctcctacgagttggttggtcaaccgtgttgtgcactgcttgtattgtcttctcctagcgtcactagctagtcctcaagaagaggtttctgg---tgtaatcagGATGTGGCTGCCAATCAGGATGTGGCTGTGAACCTGATCATCACAGACTACTGCATGCCTGGCATGACAGGATATGACCTGCTCAAGAAGATCAAG
upper sequence: GLYMA19G31320.2 (Glycine max), 3'ss of exon 2
lower sequence: AT3G57040.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatggtgtgtttttttttgttagatgcataaaggtgtttttagttttaaaattttaaccaacttgttgtgttgtgtttgtgttcagtgtttatttttggccacagatcagtttctttttctgggattctgag-attgtttttggatttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
||| | | || | ||||| ||| || || ||| | || || ||| |||| |||| | ||| | | | ||| || || ||||||||| | || |||||||| ||||||||||||||||| || ||||| ||||| |||||| |||||
-------------------------------------------------------------gtttgctcttttatttttgtaaatcactttttcttctgtttttgttgttgttgttgttgttgttattgaagttgttgtgtttgattggttgc-tttcaacagGTAGTTGAAGTGAATCTTATAATTACAGATTATTGTATGCCTGGCATGACTGGTTATGATTTGCTCAAGAAAGTCAAG
upper sequence: GLYMA19G31320.2 (Glycine max), 3'ss of exon 2
lower sequence: AT2G41310.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatggtgtgtttttttttgttagatgcataaaggtgtttttagttttaaaattttaaccaacttgttgtgttgtgtttgtgttcagtgtttatttttggccacagat-cagtttctttttctgggattctgagattgtttttggatttttgtgtcttta-tagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
|| || | | || | || |||| ||| || | | | | | || | | || || ||||||| ||| |||| || | || | |||| || || | ||||| | || |||||||||||||||||||||||||| || ||||| ||||| |||||| | |||
--------------------------------------------------------gttcagtttttgatcttttacatg-attcaaagttggttactttcgaaatttgcaatgaatggtt-----atattgagatttgtttgtaatttgtggcttttgagcagGAAGTTGAAATAAATCTAATAATTACAGATTACTGTATGCCTGGCATGACTGGTTATGATTTGCTCAAGAAAGTTAAG
upper sequence: GLYMA19G31320.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g05390.t01 (Vitis vinifera), 3'ss of exon 2
gtatggtgtgtttttttttgttagatgcataaaggtgtttttagttttaaaattttaaccaacttgttgtgttgtgtttgtgttcagtgtttatttttggccacagatcagtttctttttctgggattctgagattgtttttggatttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
||||| | | || |||| | || | |||| || | | | ||| ||| | || || ||| | | ||||||||| | || | |||| | | || || ||||| |||||| |||| |||| ||||||||||||||| | || || || |||||||||||||| |||||||||||||| || || || |||||||||
gtatgattcttcttcttttttccattg--tcaagg-gtcaggaatctcaaatcttt--cttgaggatttccttacattttccctttttttttattttttttta--------ttattctttccgagttttctgaatcttttttca--ctttgtgaatttacagGAAGTGGAGGTGAATCTTATAATTACTGACTACTGTATGCCTGGAATGACAGGCTATGATTTACTCAAAAAAATCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagtttctttttctgggattctgagattgtttttggatttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
tgtcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggtgtgtttttttttgttagatgcataaaggtgtttttagttttaaaattttaaccaacttgttgtgttgtgtttgtgttcagtgtttatttttggccacagatcagtttctttttctgggattctgagattgtttttggatttttgtgtctttatagGAGGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGACTTGCTTAAGAAAATCAAG
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