Sequence
atgc intronic sequence ATGC exonic sequence...aatcggtgattccaagttattctcttctcttgcacatttatgattaaaattctaatgatcattcaatctacttaagactagaacatggttgcatttgcagGCATTATAATATGAACCGCATCAGATTAGTATGGTCTCGCATATGGAATGTTCTCTCAGATTTCTTTGTGTCAGTTGGATTGTCAGAAAACTTGTCAGTT
Basic information
species | Glycine max |
transcript | GLYMA02G48200.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G48200.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G365185_T01 (Zea mays), 3'ss of exon 7
---aatcggtgattccaagttattctcttctcttgcacatttatgattaaaattctaatgatcattcaatctacttaagactagaacatggttgcatt-tgcagGCATTATAATATGAACCGCATCAGATTAGTATGGTCTCGCATATGGAATGTTCTCTCAGATTTCTTTGTGTCAGTTGGATTGTCAGAAAACTTGTCAGTT
| | || | || | |||||| || || || | ||| || | ||| | ||| |||| ||||||||| |||||||||||||| | || || ||||| || || ||||| ||||| |||||||| ||||| || ||||| |||||||| ||| | ||||||
gtaagcttataatctatgacctatgtcaagctacatgaaattatgaatatgtttgtagacaatattt--tccaaaacgacctaattcgaagtttcattgcacagGCATTACAATATGAACCGCATTCGTTTGGTTTGGTCCCGTATTTGGAAAGTTCTGTCAGATTTTTTTGTTTCTGTTGGGTTGTCAGAGAACCTTTCAGTT
upper sequence: GLYMA02G48200.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G35380.1 (Arabidopsis thaliana), 3'ss of exon 6
aatcggtgattccaagttattctcttctcttgcacatttatgattaaaattctaatgatcattcaatctacttaagactagaacatggttgcatttgcagGCATTATAATATGAACCGCATCAGATTAGTATGGTCTCGCATATGGAATGTTCTCTCAGATTTCTTTGTGTCAGTTGGATTGTCAGAAAACTTGTCAGTT
|| | | | | ||||| | |||| || | | | | | ||||| | | | || | | | | |||||||||||| |||||||| ||| ||||||| ||||| ||||||||||||||||| || |||||||| || |||||||| |||||||| || | || |||
-----gtaacttc---tcattctatgatcttatactaattttacattgctctgctttgccattctctgatcaaatgaactgttttctttctctgtgacagGCATTATAACATGAACCGGATCCGATTAGTTTGGTCCCGCATATGGAATGTTCTTTCTGATTTCTTCGTATCAGTTGGCTTGTCAGAGAATCTCTCTGTT
upper sequence: GLYMA02G48200.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv03s0038g04090.t01 (Vitis vinifera), 3'ss of exon 7
aatcggtgattccaagttattctcttctcttgc-acatttatgattaaaattctaatgat--cattcaatctacttaagactagaacatggttgcatttgcagGCATTATAATATGAACCGCATCAGATTAGTATGGTCTCGCATATGGAATGTTCTCTCAGATTTCTTTGTGTCAGTTGGATTGTCAGAAAACTTGTCAGTT
| | || | || ||| | | | | || | ||| || ||||||| ||| || || ||| | | ||| ||| ||||||||| |||||||||||||||||| | |||||||||||||||||||||||||| || ||||||||||| |||||||| |||||||||||| | ||||||
-aaggttgtaaaaatgtcattttgaacagataagagatatgggatgcgttttataatgatgccatgttatttatttattttttattttttgtt-tgttt-cagGCATTACAATATGAACCGCATCAGACTTGTATGGTCTCGCATATGGAATGTTCTATCTGATTTCTTTGTATCAGTTGGCTTGTCAGAAAACCTCTCAGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaattctaatgatcattcaatctacttaagactagaacatggttgcatttgcagGCATTATAATATGAACCGCATCAGATTAGTATGGTCTCGCATATGGAATGTTCTCTCAGATTTCTTTGTGTCAGTTGGATTGTCAGAAAACTTGTCAGTT
ttctaat putative branch site (score: 2)
taatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatcggtgattccaagttattctcttctcttgcacatttatgattaaaattctaatgatcattcaatctacttaagactagaacatggttgcatttgcagGCATTATAATATGAACCGCATCAGATTAGTATGGTCTCGCATATGGAATGTTCTCTCAGATTTCTTTGTGTCAGTTGGATTGTCAGAAAACTTGTCAGTT
- - - tgattcc
- - - - - - - - - - - - - - cttgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cattcaa