Sequence
atgc intronic sequence ATGC exonic sequencegtatacccaaataaatattttgtttttagtctttacagcaaaaggatgcttctttaacatggatatgttgcagATGGATGTATTTAATACTTTCATTGAGCTCTTGCGTCAAACTGGAAATGTCACAAAAGGGCAGACAGATGCAGATATGAGGCAA
Basic information
species | Glycine max |
transcript | GLYMA07G40230.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G40230.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G168629_T04 (Zea mays), 3'ss of exon 10
gtatacccaaataaatattttgtttttagtctttacagcaaaaggatgcttctttaacatggatatg-ttgcagATGGATGTATTTAATACTTTCATTGAGCTCTTGCGTCAAACTGGAAATGTCACAAAAGGGCAGACAGATGCAGATATGAGGCAA-
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--gtaaatacatgataaattcatatgtgaaacttattattttctaaatcttatgaagcttctatccgattctagATGGATATATTTAACACCTTCATTGAGCTGTTACGCCAAACTGGTAATGTTACGAAAGGACAAGGCGACATCGAT--GAGTCCAG
upper sequence: GLYMA07G40230.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G053644_T02 (Zea mays), 3'ss of exon 8
gtatacccaaataaatattttgtttttagtctttacagcaaaaggatgcttctttaacatggatatg-ttgcagATGGATGTATTTAATACTTTCATTGAGCTCTTGCGTCAAACTGGAAATGTCACAAAAGGGCAGACAGATGCAGATATGAGGCAA-
|| | || | | || || | || || | ||| | | | | || | || |||||||| ||||||| || ||||||||||| || || |||||||| ||||| || ||||| || || ||| ||| | |
--gtaaatacatgataaattcgtatgtaaaacttcttattttctaaatcttatgaagcttctatccgattctagATGGATATATTTAACACCTTCATTGAGCTGTTACGCCAAACTGGTAATGTTACGAAAGGACAAGGCGACATCGAT--GAGTCCAG
upper sequence: GLYMA07G40230.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 10
gtat---acccaa---ataaatattttgtttttagtctttacagcaaaaggatgcttctttaacatggata----tgttgcagATGGATGTATTTAATACTTTCATTGAGCTCTTGCGTCAAACTGGAAATGTCACAAAAGGGCAGACAGATGCAGATATGAGGCAA-
|||| | || || ||| | | || || |||| || | || ||| || | || |||| |||||||||||||| || || |||||||| || ||||| ||||| |||||||| |||||||| || || || | || ||| |||
gtatgtaatttaatccattaatgctctattcttg--ctttgcaatatggttattgatctaagactgaggtactgttgttacagATGGATGTATTCAACACATTCATTGATCTGTTGCGGCAAACGGGAAATGTTACAAAAGGTCAAACTGACACCGA--TGAATCAAG
upper sequence: GLYMA07G40230.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 11
gtatacccaaataaatattttgtt----tttagtctttacagcaaaaggatgcttctttaacatggatatgttgcagATGGATGTATTTAATACTTTCATTGAGCTCTTGCGTCAAACTGGAAATGTCACAAAAGGGCAGACAGATGCAGATATGAGGCAA
||| || ||| || ||| | ||| | | | | | || || | | | | ||| | ||||||||||| || ||||| || |||||||| | || |||||||||||||| || ||||||||||| || || |
gtaagccaaaaatgttaatttatagatatttgttttcctctatacatggttgatcatctggttttttcatgattcagATGGATGTGTTCAATACATTTATTGAGCTACTACGCCAAACTGGAAATGTTACGAAAGGGCAGACTGACATGAATGAACTGAG- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtttttagtctttacagcaaaaggatgcttctttaacatggatatgttgcagATGGATGTATTTAATACTTTCATTGAGCTCTTGCGTCAAACTGGAAATGTCACAAAAGGGCAGACAGATGCAGATATGAGGCAA
ctttaac putative branch site (score: 3)
ttctttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatacccaaataaatattttgtttttagtctttacagcaaaaggatgcttctttaacatggatatgttgcagATGGATGTATTTAATACTTTCATTGAGCTCTTGCGTCAAACTGGAAATGTCACAAAAGGGCAGACAGATGCAGATATGAGGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT