Sequence
atgc intronic sequence ATGC exonic sequencegtaaaatcatagtttatcatttcttaccttgccttgctagtatctaacacttcatgtcttgccttgctagtatgcacaaaagtgaaaaatccttgagtttctttatgtcttttggacttgtattctataccactatttctgattagataagattccatttgaaacatatgtttaattttattgcacagGTGGTCAGGCCAAGACACTCATGTTAGTCCAAATTAATTCAGATTTAAAGTCTTTTTCTGAATCTCTAAGTACTTTAAAGTTTGCTGAGAGGGTTTCTGG
Basic information
species | Glycine max |
transcript | GLYMA13G33390.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os01g54080.1 (Oryza sativa), 3'ss of exon 17
gtaaaatcatagtttatcatttcttaccttgccttgctagtatctaacacttcatgtcttgccttgctagtatgcacaaaagtgaaaaatccttgagtttctttatgtcttttggacttgtattctataccactatttctgattagataagatt-ccatttgaaacatatgtttaattttattgcacagGTGGTCAGGCCAAGACACTCATGTTAGTCCAAATTAATTCAGATTTAAAGTCTTTTTCTGAATCTCTAAGTACTTTAAAGTTTGCTGAGAGGGTTTCTGG
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----------------------------------------------------------------------------------------------------------------gtaacatatagttgttgatag-atgtgtacgtggataggcttactagtttgcctaacttatgcgctttcttgta--gGTGGACAAGCAAAGACACTAATGTTTGTTCAAATAAACCCTGATATTGAATCATATTCAGAAACCATAAGTACTTTAAAATTTGCTGAAAGGGTTTCTGG
upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G173700_T01 (Zea mays), 3'ss of exon 14
gtaaaatcatagtttatcatttcttaccttgccttgctagtatctaacacttcatgtcttgccttgctagtatgcacaaaagtgaaaaatccttgagtttctttatgtcttttggacttgtattctataccactatttctgattagataagattccatttgaaacatatgtttaattttattgcacagGTGGTCAGGCCAAGACACTCATGTTAGTCCAAATTAATTCAGATTTAAAGTCTTTTTCTGAATCTCTAAGTACTTTAAAGTTTGCTGAGAGGGTTTCTGG
| | ||| | ||| || | || || | |||| || ||| | |||| | | || ||| ||||| || || ||||| || || || || || ||||| || || || ||| | ||| | |||| | ||| ||| || |||||||||||||||||||||| ||||| |||||
----------------------------------------------------------------------------------------------gtaatcaaatatttatttactacctagatgttaaata--tattaatgtttatct-----tccaaattttatgtaccttttattttcttcca--gGTGGACAAGCAAAAACTCTAATGTTTGTTCAGATAAATCCTGATGTTGAGTCATATTCAGAAACTATAAGTACTTTAAAGTTTGCTGAAAGGGTGTCTGG
upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G093391_T01 (Zea mays), 3'ss of exon 2
gtaaaatcatagtttatcatttcttaccttgccttgctagtatctaacacttcatgtcttgccttgctagtatgcacaaaagtgaaaaatccttgagtttctttatgtcttttggacttgtattctataccactatttctgattagataagattccatttgaaacatatgtttaattttattg---cacagGTGGTCAGGCCAAGACACTCATGTTAGTCCAAATTAATTCAGATTTAAAGTCTTTTTCTGAATCTCTAAGTACTTTAAAGTTTGCTGAGAGGGTTTCTGG
|| | | || || | || ||| ||| | | || | | |||| || || |||| || || || || || | ||||| || || || || ||||| | |||| ||| || || |||||||||| ||||||||||| |||||||||||
-----------------------------------------------------------------------------------------------------------------------gtgcttaccattgctgattgtt-ctatatactatttacatgttatcagttatctaatatttttcatctgcagGCGGCCATGCAAAAACCTTGATGTTTGTGCAGATCAACCCAGATGTCTCATCTTATTCGGAGACTTTAAGTACTTTGAAGTTTGCTGAAAGGGTTTCTGG
upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 17
gtaaaatcatagtttatcatttcttaccttgccttgctagtatctaacacttcatgtcttgccttgctagtatgcacaaaagtgaaaaatccttgagtttctttatgtcttttggacttgtattctataccactatttctgattagataagattccatttgaaacatatgtttaattttattgcacagGTGGTCAGGCCAAGACACTCATGTTAGTCCAAATTAATTCAGATTTAAAGTCTTTTTCTGAATCTCTAAGTACTTTAAAGTTTGCTGAGAGGGTTTCTGG
|| || | ||| | | || | || | | | |||||| | | | || | | ||||| | | || || || ||| | | ||| | || | ||| ||| | || | | | ||||||||||| || ||||| || ||||| || || ||||| | ||| | || || ||||||||| || ||||||||| || ||||||||||||||||||||
--------gtacttcactgttttccagttgcttttagcaataaatcccttcacctgtcttattgtttcgtcaggactctaaattatt--tccttagctcccaatagtcctctt---tttgaacttcatatagcggatttttatt--------ttctactttataaac----------------tacagGTGGTCAAGCAAAGACTCTTATGTTTGTGCAGCTTAATCCTGATGTGAATTCATTTTCTGAAACTGCAAGTACTTTGAAATTTGCTGAGAGGGTTTCTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttctgattagataagattccatttgaaacatatgtttaattttattgcacagGTGGTCAGGCCAAGACACTCATGTTAGTCCAAATTAATTCAGATTTAAAGTCTTTTTCTGAATCTCTAAGTACTTTAAAGTTTGCTGAGAGGGTTTCTGG
ttttatt CT-rich tract
atttgaaacatatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaatcatagtttatcatttcttaccttgccttgctagtatctaacacttcatgtcttgccttgctagtatgcacaaaagtgaaaaatccttgagtttctttatgtcttttggacttgtattctataccactatttctgattagataagattccatttgaaacatatgtttaattttattgcacagGTGGTCAGGCCAAGACACTCATGTTAGTCCAAATTAATTCAGATTTAAAGTCTTTTTCTGAATCTCTAAGTACTTTAAAGTTTGCTGAGAGGGTTTCTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG