Sequence
atgc intronic sequence ATGC exonic sequencegttagtacacacacacacacacacacacatatatatatatatatatatacacacacacattagttaaatattacatatacaagacatagactattcgattaattaatctaaaatatagacttattgattaattgggtggtgaaattgcaatttgcacagATGGATTACATACTAGGGAAAAACCCTGAAAGAAGATCTTACATGGTTGGATTTGGAAAGAACCCACCAACGCAGGCTCACCATAGAGGTGCTTCGGTGC
Basic information
species | Glycine max |
transcript | GLYMA06G05950.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G05950.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0008g02020.t01 (Vitis vinifera), 3'ss of exon 7
gttagtacacacacacacacacacacacatatatatatatatatatatacacacacacattagttaaatattacatatacaagacatagactattcgattaattaatctaaaatatagacttattgattaattgggtggtgaaattgcaatttgcacagATGGATTACATACTAGGGAAAAACCCTGAAAGAAGATCTTACATGGTTGGATTTGGAAAGAACCCACCAACGCAGGCTCACCATAGAGGTGCTTCGGTGC
| | | | | | ||| |||| | || ||||||| | | | | |||| | | || ||| ||| ||||||| | |||||||| ||||||||| ||||||| |||||||| ||| ||||||| |||||||||||||||||||| ||||| ||||| || || |||||||| || || || || |
---------------------------------------------aaaaaaaaaaaatgtta--taaaagtgac-tatacaactaacatttttcttaattagaaggtttttttcatggac--attaattaatttttaaataaaattgca---------gATGGATTATTTACTAGGAAAAAACCCGGAAGGAAGATCATACATGGTTGGATTTGGAAACAACCCCCCAACACAAGCACACCATAGGGGAGCCTCAGTTC
upper sequence: GLYMA06G05950.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv04s0008g02010.t01 (Vitis vinifera), 3'ss of exon 7
gttagtacacacacacacacacacacacatatatatatatatatatatacacacacacattagttaaatattacatatacaagacatagactattcgattaattaatctaaaatatagacttattgattaattgggtggtgaaattgcaatttgcacagATGGATTACATACTAGGGAAAAACCCTGAAAGAAGATCTTACATGGTTGGATTTGGAAAGAACCCACCAACGCAGGCTCACCATAGAGGTGCTTCGGTGC
| |||| |||| |||| || || || || | ||| ||| ||| ||| | | | || | | | || || || || ||||||||||| ||||||| ||||||| ||| ||||||| |||||||| || || ||||| || ||||| ||||| || ||||||||||| |||| || |
----------------------------------------------------gtatgtattatttaat--ttac-taggaaaaacccag------caattttttattctcaaaaaaataattttctactgatct----------ttccatttgttgcagATGGATTATCTACTAGGAGAAAACCCAGAAGGAAGATCGTACATGGTGGGCTTCGGAAACAATCCACCCACGCACGCACACCATAGAGGGTCTTCAGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatctaaaatatagacttattgattaattgggtggtgaaattgcaatttgcacagATGGATTACATACTAGGGAAAAACCCTGAAAGAAGATCTTACATGGTTGGATTTGGAAAGAACCCACCAACGCAGGCTCACCATAGAGGTGCTTCGGTGC
gattaat putative branch site (score: 3)
aaaatatagacttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtacacacacacacacacacacacatatatatatatatatatatacacacacacattagttaaatattacatatacaagacatagactattcgattaattaatctaaaatatagacttattgattaattgggtggtgaaattgcaatttgcacagATGGATTACATACTAGGGAAAAACCCTGAAAGAAGATCTTACATGGTTGGATTTGGAAAGAACCCACCAACGCAGGCTCACCATAGAGGTGCTTCGGTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC