Sequence
atgc intronic sequence ATGC exonic sequence...aggaggatgctgtgttacacatccaagggaattcctgtttgtttattaggtatgatgcacttgtttcaacttttcaatgacaattgatcatttgttgtagGTTGAGCTTCAAACTGTGGATGGACTGGTAAAGGATAGAACACAATGTGCTCCCAATGGATACTATTTTATTCCAGTATATGACAAG
Basic information
species | Glycine max |
transcript | GLYMA03G37930.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G37930.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g19470.1 (Oryza sativa), 3'ss of exon 2
aggaggatgctgtgttacacatccaagggaattcctgtttgtttattaggtatgatgcacttgtttcaacttttcaatgacaattgatcatttgttgtagGTTGAGCTTCAAACTGTGGATGGACTGGTAAAGGATAGAACACAATGTGCTCCCAATGGATACTATTTTATTCCAGTATATGACAAG
| || || | | || || | | | | | | | | |||| | || | | || | | || |||||||||| ||| | ||||| |||| ||||| || || || ||||| || ||||||||||||||||| ||||| |||||||||
cgagtcttgatgcagtgctaattcatgaccacactattctttatgctttgtatatggtttctgccgtgctcagactgaccctcttaactctctgaatcagGTTGAGCTGTGTACTATTGATGGTTTGGTTAAGGAAAGCACTCAGTGTGCCCCTAATGGATACTATTTTATCCCAGTCTATGACAAG
upper sequence: GLYMA03G37930.2 (Glycine max), 3'ss of exon 2
lower sequence: AT3G62360.1 (Arabidopsis thaliana), 3'ss of exon 2
aggaggatgctgtgttacacatccaagggaattcctgtttgtttattaggtatgatgcacttgtttcaacttttcaatgacaattgatcatttgttgtagGTTGAGCTTCAAACTGTGGATGGACTGGTAAAGGATAGAACACAATGTGCTCCCAATGGATACTATTTTATTCCAGTATATGACAAG
| | || | ||| | || || | | ||| | || | | | || | ||| || | | | || | | || |||||||||||||||| || |||||| ||||||| || || ||||| ||||| || ||||| |||||||| || |||||||||||||||
-gtaaga-attcaattagttgactgtttttttttctatctttttctgagtgaggtttcattgattt--gtttgtttgttccccttca--aattaca--agGTTGAGCTTCAAACAGTAGATGGATTGGTAAAAGACAGTACACAGTGTGCCCCAAATGGTTACTATTTCATCCCAGTATATGACAAG
upper sequence: GLYMA03G37930.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0005g01650.t01 (Vitis vinifera), 3'ss of exon 2
aggaggatgctgtgt-tac--acatccaagggaattcctgttt----gtttattaggtatgatgcacttgtttcaacttttcaatgacaattgatcatttgttgtagGTTGAGCTTCAAACTGTGGATGGACTGGTAAAGGATAGAACACAATGTGCTCCCAATGGATACTATTTTATTCCAGTATATGACAAG
| || | | || |||| | | |||| || || | || | | ||| | || | || | |||| | | ||||||||||||||| || | |||||| |||| ||||| ||||| || ||||| || ||||| |||||||| ||||| || |||||||||
-------ttctatctacaccaacattctggttaattgctaattttgtgcttctgaaacatggatacttaaattgaggttctgaatggtttattttatcaaactgtagGTTGAGCTTCGCACAATTGATGGATTGGTGAAGGACAGAACTCAGTGTGCCCCAAATGGTTACTATTTCATTCCTGTCTATGACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaggtatgatgcacttgtttcaacttttcaatgacaattgatcatttgttgtagGTTGAGCTTCAAACTGTGGATGGACTGGTAAAGGATAGAACACAATGTGCTCCCAATGGATACTATTTTATTCCAGTATATGACAAG
aattgat putative branch site (score: 4)
ttttcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aggaggatgctgtgttacacatccaagggaattcctgtttgtttattaggtatgatgcacttgtttcaacttttcaatgacaattgatcatttgttgtagGTTGAGCTTCAAACTGTGGATGGACTGGTAAAGGATAGAACACAATGTGCTCCCAATGGATACTATTTTATTCCAGTATATGACAAG
- - ggatgct
- - - - - - - - -cacatcc
- - - - - - - - - - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - tgatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatgac