Sequence
atgc intronic sequence ATGC exonic sequencegtttgctttctatttgtctctaactggtttgtgctccctcatttattcagaaggctatccttatgaactataccttcattaatttatcaacagCTTCTCTGGGTAAATCTTATCATGGATACTCTTGGAGCATTAGCCTTGGCAACTGAACCACCAACTGATTCCCTGATGGATCAAAGTCCAAAGGGTCGAA
Basic information
species | Glycine max |
transcript | GLYMA17G06520.1 |
intron # | 29 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G06520.1 (Glycine max), 3'ss of exon 29
lower sequence: GRMZM5G893864_T01 (Zea mays), 3'ss of exon 6
---gtttgctttctatttgtctctaactggtttgtgc-tccctcatttattcagaaggctatccttatgaactat--accttcattaatttatca-acagCTTCTCTGGGTAAATCTTATCATGGATACTCTTGGAGCATTAGCCTTGGCAACTGAACCACCAACTGATTCCCTGATGGATCAAAGTCCAAAGGGTCGAA
|| || | | | ||| | | | | |||| ||| | | || ||| | | | || ||| | | ||||||||||||||| ||||| |||||||| || || || || | || ||||| |||||||||||||| ||| || ||| | ||| || || |
caaaccaagttgttaatgaacaaagtgtagttaaagtattaagcttctatttgaaagttggacaccaacaaatattagcttccttttgttttttatacagCTTCTCTGGGTTAATCTCATCATGGACACACTCGGTGCTCTTGCTTTGGCTACTGAACCACCAACAGATCAACTTATGAGGCGGCCACCAGTTGGACGGA
upper sequence: GLYMA17G06520.1 (Glycine max), 3'ss of exon 29
lower sequence: AT5G57110.2 (Arabidopsis thaliana), 3'ss of exon 28
gtttgctttctatttgtctctaactggtttgtgctccctcatttattcagaaggctatccttatgaac-tatacct--tcattaatttatca-acagCTTCTCTGGGTAAATCTTATCATGGATACTCTTGGAGCATTAGCCTTGGCAACTGAACCACCAACTGATTCCCTGATGGATCAAAGTCCAAAGGGTCGAA
||||| || ||| | || || ||| | ||| | || || ||| | || | |||| | || |||| || ||||||||||||||| ||||| || ||||| |||||||||||||| || ||||| ||||||||||| |||||| ||| |||| |||| || |||
gtttgagtttctgttgcatttagctctttttgaatatctctctctctctaaatattataagtttgctcatatatttggcgttttctttaacatacagCTTCTCTGGGTTAATCTGATAATGGACACTCTTGGAGCATTGGCTTTGGCTACTGAACCACCCACTGATCACCTCATGGGGAGGCCTCCAGTTGGCAGAA
upper sequence: GLYMA17G06520.1 (Glycine max), 3'ss of exon 29
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 29
gtttgctttctatttgtctctaactggtttgtgctccctcatttattcagaaggctatccttatgaactataccttcattaatttatcaacagCTTCTCTGGGTAAATCTTATCATGGATACTCTTGGAGCATTAGCCTTGGCAACTGAACCACCAACTGATTCCCTGATGGATCAAAGTCCAAAGGGTCGAA
||| | | | | || || ||| | | | | |||| | | || | | |||| | || || ||| |||||| |||||||| ||||||||||||||||||||||||||| | || ||||| |||||||||||||| ||| ||||||| | |||| |||||||
gttggtggcccacccattgctgcct--cttgagttgacagttctattatgtcgtctcatttgtttaactctgtgttgtctactttgcttacagCTCCTCTGGGTTAATCTTATCATGGATACTCTTGGAGCACTTGCATTGGCCACTGAACCACCAACAGATCACCTGATGCACAGGCCTCCAGTTGGTCGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatttattcagaaggctatccttatgaactataccttcattaatttatcaacagCTTCTCTGGGTAAATCTTATCATGGATACTCTTGGAGCATTAGCCTTGGCAACTGAACCACCAACTGATTCCCTGATGGATCAAAGTCCAAAGGGTCGAA
cattaat putative branch site (score: 3)
ttcattaatttatcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgctttctatttgtctctaactggtttgtgctccctcatttattcagaaggctatccttatgaactataccttcattaatttatcaacagCTTCTCTGGGTAAATCTTATCATGGATACTCTTGGAGCATTAGCCTTGGCAACTGAACCACCAACTGATTCCCTGATGGATCAAAGTCCAAAGGGTCGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA