Sequence
atgc intronic sequence ATGC exonic sequencegtacttcttaattattgaaagctaaatgatttattaattttccagttgggtggttcatattagtaatttataatttcatttcttgtttggtggcagCTTTACAGCACTGTCACTCTAAGACAAGGGGAGAAGAAGCATTACAACCATAAGGTGGATGCCTATAGCTTTGCTATAGTGTTGTGGGAACTCGTCCATA
Basic information
species | Glycine max |
transcript | GLYMA19G08500.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G08500.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G165231_T01 (Zea mays), 3'ss of exon 4
gtacttcttaattattgaaagctaaatgatttattaattttccagttgggtggttcatattagtaatttataatttcatttcttgtttggtggcagCTTTACAGCACTGTCACTCTAAGACAAGGGGAGAAGAAGCATTACAACCATAAGGTGGATGCCTATAGCTTTGCTATAGTGTTGTGGGAACTCGTCCATA
|| | | || | || | |||| || || || || || ||| |||| | | | || ||| | |||||||| || || || || || || || ||||||||||||||||| || || |||| ||| |||||||| || ||||||||||||||| |||| |
-------------gtttctactgcatccatatttttagtttc----tgagtccttaattttctgtattattaatgtaacctgggaattctaaacagTTGTACAGCACAGTAACACTGAGGCATGGAGAAAAGAAGCATTACAACCACAAAGTAGATGTCTACAGCTTTGCAATTGTGTTGTGGGAACTCCTCCACA
upper sequence: GLYMA19G08500.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g09290.t01 (Vitis vinifera), 3'ss of exon 4
gtacttcttaattattgaaagctaaatgatttattaattttccagttgggtggttcatattagtaatttataatttcatttcttgtttggtggcagCTTTACAGCACTGTCACTCTAAGACAAGGGGAGAAGAAGCATTACAACCATAAGGTGGATGCCTATAGCTTTGCTATAGTGTTGTGGGAACTCGTCCATA
|||||| | | | |||| | ||| || || || | | | || | | | || | | || || | ||||||||| | ||||| ||||| || |||| || || ||||||||||| |||||| | || |||||||| ||||||||||| || || |||||||| || | ||||
gtactttgt--tca--gaaaaatgcatgcttcttttgttattttgcttttctgtggccacttcagaaccatgaact---ttgttatctggtggcagTTGTACAGTACTGTGACATTAAGGCATGGAGAGAAGAAGCACTACAACAACAAAGTGGATGCTTATAGCTTTGCCATTGTCTTGTGGGAGCTTTTACATA
upper sequence: GLYMA19G08500.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ07184 (Selaginella moellendorffii), 3'ss of exon 4
gtacttcttaattattgaaagctaaatgatttattaattttccagttgggtggttcatattagtaatttataatttcatttcttgtttggtggcagCTTTACAGCACTGTCACTCTAAGACAAGGGGAGAAGAAGCATTACAACCATAAGGTGGATGCCTATAGCTTTGCTATAGTGTTGTGGGAACTCGTCCATA
| | || | ||| | | | || || || | | || | | | || | | |||||| |||||||| || || |||||| | || || ||||||||||| || || |||||||| | ||| |||||||| || ||||||||||| || | |
--------------------gtcagatatgctctta--tccataatcttccattttgtactaaaa---caaaaccttctcttttactccctcgcagCTCTACAGCACGGTGACGCTAAGAAACGGCGAAAAGAAGCATTATAATCAAAAGGTGGACGTCTACAGCTTTGCAATCGTGTTGTGGGAGCTGCTGACCA
upper sequence: GLYMA19G08500.1 (Glycine max), 3'ss of exon 4
lower sequence: EFJ09179 (Selaginella moellendorffii), 3'ss of exon 4
gtacttcttaattattgaaagctaaatgatttattaattttccagttgggtggttcatattagtaatttataatttcatttcttgtttggtggcagCTTTACAGCACTGTCACTCTAAGACAAGGGGAGAAGAAGCATTACAACCATAAGGTGGATGCCTATAGCTTTGCTATAGTGTTGTGGGAACTCGTCCATA
| | || | ||| | | | || | || | | || | | | || | | |||||| |||||||| || || |||||| | || || ||||||||||| || || |||||||| | ||| |||||||| || ||||||||||| || | |
--------------------gtgagatatgctctta--tccataatcttccattttgtgctaaaa---caaaaccttctcttttactccctcgcagCTCTACAGCACGGTGACGCTAAGAAACGGCGAAAAGAAGCATTATAATCAAAAGGTGGACGTCTACAGCTTTGCCATCGTGTTGTGGGAGCTGCTGACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccagttgggtggttcatattagtaatttataatttcatttcttgtttggtggcagCTTTACAGCACTGTCACTCTAAGACAAGGGGAGAAGAAGCATTACAACCATAAGGTGGATGCCTATAGCTTTGCTATAGTGTTGTGGGAACTCGTCCATA
tttcatttcttgttt CT-rich tract
ttcatattagtaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttcttaattattgaaagctaaatgatttattaattttccagttgggtggttcatattagtaatttataatttcatttcttgtttggtggcagCTTTACAGCACTGTCACTCTAAGACAAGGGGAGAAGAAGCATTACAACCATAAGGTGGATGCCTATAGCTTTGCTATAGTGTTGTGGGAACTCGTCCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA