Sequence
atgc intronic sequence ATGC exonic sequence...cattaaaatatggatgttgcagatcatttaaaccatacgtatggctttgagtttgcttagtatcttcattagaataatttggtttgttgtgtttttgcagTCATCTGTAGAGGTGGACTTCTTTACTGAATACGGTGAAGGGAGCAGATACAGAATAGAGGAAGTAATTGGTAAAGGAAGCTATGGTGTTGTCTGCTCTG
Basic information
species | Glycine max |
transcript | GLYMA13G28120.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G28120.2 (Glycine max), 3'ss of exon 1
lower sequence: AT5G19010.1 (Arabidopsis thaliana), 3'ss of exon 1
----------------------------------------------cattaaaatatg----gatgttgcagatcatttaaaccatac-gtatggctttgagtttgcttagtatc----ttcattagaataatt-tggtttgttgtgtttttgcagTCATCTGTAGAGGTGGACTTCTTTACTGAATACGGTGAAGGGAGCAGATACAGAATAGAGGAAGTAATTGGTAAAGGAAGCTATGGTGTTGTCTGCTCTG
|||| || || || | | || || | || | | | | || || |||| | | | | | | | | || || ||| | | |||||||| || ||||| || ||||| || ||||| |||||||| ||||||||||||||||||||||| |||||||||||||| ||||| |||||||| ||||
gtccaatttttcaatctcttatgtatcagatttgcttattagaactgattaggatctgtagcaatcctttttactgttactgccttttagtttagtcctaatctttctctgtattgaagcttttgatattgacaatagatttttctgtatattcagTCATCAGTTGAGGTAGATTTCTTCACGGAATATGGTGAAGGAAGCAGATACAGAATAGAGGAAGTGATTGGTAAAGGAAGTTATGGAGTTGTCTGTTCTG
upper sequence: GLYMA13G28120.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv05s0020g02530.t01 (Vitis vinifera), 3'ss of exon 1
-cattaaaatatgg-atgttgcagatcatttaaaccatacgtatggctttgagtttgcttagtatcttcattagaataatttggtttgttgtgtttttgcagTCATCTGTAGAGGTGGACTTCTTTACTGAATACGGTGAAGGGAGCAGATACAGAATAGAGGAAGTAATTGGTAAAGGAAGCTATGGTGTTGTCTGCTCTG
| || | || || |||| | ||||| || || || || ||| | | | | | || ||| ||| | || ||| ||||||| ||||| || ||||| ||||||||||| || || ||||| ||||| ||||||||||||||||||||||||||||||||||| || || ||||
actttcctctctgttatcttgccggccatttcaattgccatcatttctgtgtgtt-gttcataaaatgtcttgctttaaac-ggtccttcctggcgacacagGCATCTGTGGAGGTAGATTTCTTCACTGAATACGGCGAGGGAAGCAGGTACAGGATAGAGGAAGTAATTGGTAAAGGAAGCTATGGTGTCGTTTGTTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgagtttgcttagtatcttcattagaataatttggtttgttgtgtttttgcagTCATCTGTAGAGGTGGACTTCTTTACTGAATACGGTGAAGGGAGCAGATACAGAATAGAGGAAGTAATTGGTAAAGGAAGCTATGGTGTTGTCTGCTCTG
tgttttt CT-rich tract
ttcattagaataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattaaaatatggatgttgcagatcatttaaaccatacgtatggctttgagtttgcttagtatcttcattagaataatttggtttgttgtgtttttgcagTCATCTGTAGAGGTGGACTTCTTTACTGAATACGGTGAAGGGAGCAGATACAGAATAGAGGAAGTAATTGGTAAAGGAAGCTATGGTGTTGTCTGCTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA