Sequence
atgc intronic sequence ATGC exonic sequencegtgagcattctggataatggatttggaaacatcaatttctctttaatttgattcttgtcatccatgggaccagATAGGTACAGATATTGAAGATTTCAAGTGCTCGTGGTTAATTGTGAAAGCCGTGGAACTTAGTAATGAACAACAAAAGAAAGTTCTACAA
Basic information
species | Glycine max |
transcript | GLYMA04G34770.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G34770.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G47770.1 (Arabidopsis thaliana), 3'ss of exon 9
-----------gtgagcattctggataatggatttggaaacatcaatttctctttaatttg-attcttgtcatccatgggaccagATAGGTACAGATATTGAAGATTTCAAGTGCTCGTGGTTAATTGTGAAAGCCGTGGAACTTAGTAATGAACAACAAAAGAAAGTTCTACAA
| | || | ||| | | || | ||| ||| | | || | || | || | ||||||| |||||||| ||||||||||| ||||||||||| | || || || | || | | | ||| |||||| || | || |
gtttcactcgtgctaacact-tggtttctcaggctgatgtgaatgtattcacttggttcagcatattggttttttataatgc-agATAGGAACAGATATAGAAGATTTCAAATGCTCGTGGTTGGTGGTTAAGGCATTAGAGCGCTGCAGCGAAGAACAAACTAAGATATTATAT
upper sequence: GLYMA04G34770.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv19s0015g01010.t01 (Vitis vinifera), 3'ss of exon 9
----------------------------------------gtgagcattctggataatggatttggaaaca--tcaatttctcttta---atttgattcttgtcatccatgggaccagATAGGTACAGATATTGAAGATTTCAAGTGCTCGTGGTTAATTGTGAAAGCCGTGGAACTTAGTAATGAACAACAAAAGAAAGTTCTACAA
|| | | | || || || | || || | | || || | | | || | | |||| ||||||| || || |||||||||||||| |||||||| ||||| |||||||||| | || || ||||||| |||| || ||| || |
gtaagtttcagggttactacactcatttggtttgtggaatgtaattgtatta-atcatcaatatataaccagtttgagcaaagaatatggatcttagtgttacctttcatgctaccagATCGGAACGGATATTGAAGATTTTAAGTGCTCTTGGTTGGTTGTGAAAGCACTAGAGATTTGTAATGAGGAACAGAAAAAAACCTTATAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggatttggaaacatcaatttctctttaatttgattcttgtcatccatgggaccagATAGGTACAGATATTGAAGATTTCAAGTGCTCGTGGTTAATTGTGAAAGCCGTGGAACTTAGTAATGAACAACAAAAGAAAGTTCTACAA
aatttctctttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcattctggataatggatttggaaacatcaatttctctttaatttgattcttgtcatccatgggaccagATAGGTACAGATATTGAAGATTTCAAGTGCTCGTGGTTAATTGTGAAAGCCGTGGAACTTAGTAATGAACAACAAAAGAAAGTTCTACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA