Sequence
atgc intronic sequence ATGC exonic sequencegtatgttaattgtatgcaatgcctttgttacagtttctggcacctgtatgttgaagggaaaagataaccttatatggaaaactgtatcagatctaatttccatattttttttgaagGTGGAAACTTGTAAGGACCGTATTGCATCTGCACTTGAAACACTTAGACCAACAACTTCATGGGAGAGAACCACGGCAGCAGGTCAAGGGCTGGATGGTG
Basic information
species | Glycine max |
transcript | GLYMA12G09540.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G09540.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G27460.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgttaattgtatgcaatgcctttgttacagtttctggcacctgta--tgttgaagggaaa----agataaccttatatggaaaactg--tatcagatctaatttccatatt---ttttttgaagGTGGAAACTTGTAAGGACCGTATTGCATCTGCACTTGAAACACTTAGACCAACAACTTCATGGGAGAGAACCACGGCAGCAGGTCAAGGGCTGGATGGTG
||||| | ||| | | || ||| || | ||||| | | | || || | ||| || | ||||| || | |||| | || | | | || || |||| |||||||| ||||| |||||||| |||||||||| ||||| ||||||| ||||| ||||||||| | | | ||||||||||||| ||||| |||
gtatggtcatttttt--aacatcttgtttcctgtttcctacttccttggtcattcaaattgattgtcggatcacatggcttggaatacctgttgacagactaagttctctttctgtacttcctgcagGTAGAAACTTGCAAGGATCGTATTGCTGCTGCACTTGAGACACTCAGACCAATTACTTCTTGGGAGAGATCAGCTGGAGCAGGTCAAGGGATGGATAGTG
upper sequence: GLYMA12G09540.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0080g00510.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------gtatgttaattgtatgcaatgcctttgttacagtttctggc-----acctgtatgttgaagggaaaag-ataaccttatat--------ggaaaactgtatcagatctaatt--tccatattttttttgaagGTGGAAACTTGTAAGGACCGTATTGCATCTGCACTTGAAACACTTAGACCAACAACTTCATGGGAGAGAACCACGGCAGCAGGTCAAGGGCTGGATGGTG
||| || | || | |||| || ||||| || | | ||| || | | | | |||| | ||| | || | || | || |||| | || | | |||| |||||||||||||||||||||||||||||||||||||||||||||| | |||||| ||||||||||| |||||| | || ||||||||||| || |||||
gtgtgttactgatgtccgtcactttattttgtctccttgggagttctttctt-cagttagtgactaggaagttgtctgatcagtcaatatccataatttcttatttgtattagtaatattgattaagccctaaataatcagcaatgcttttacagGTGGAAACTTGTAAGGACCGTATTGCATCTGCACTTGAAACACTAAAACCAACTACTTCATGGGAAAGAACCTCAGCTGCAGGTCAAGGACTAGATGGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agataaccttatatggaaaactgtatcagatctaatttccatattttttttgaagGTGGAAACTTGTAAGGACCGTATTGCATCTGCACTTGAAACACTTAGACCAACAACTTCATGGGAGAGAACCACGGCAGCAGGTCAAGGGCTGGATGGTG
atctaat putative branch site (score: 3)
tttccatatttttttt CT-rich tract
atctaatttccatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttaattgtatgcaatgcctttgttacagtttctggcacctgtatgttgaagggaaaagataaccttatatggaaaactgtatcagatctaatttccatattttttttgaagGTGGAAACTTGTAAGGACCGTATTGCATCTGCACTTGAAACACTTAGACCAACAACTTCATGGGAGAGAACCACGGCAGCAGGTCAAGGGCTGGATGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA