Sequence
atgc intronic sequence ATGC exonic sequencegtgtgcaatttgtattgatgtatttatttattcttcaaagaatgttgtatacgtactgatagtttcttgtatcacttttcagAAAAACAGCTTTGAACAGTTTTATATAAATTATGCCAATGAGAGGATTCAACAACATTTTAATCGGCATCTGTTTAAACTTGAGCAGGAG
Basic information
species | Glycine max |
transcript | GLYMA12G22300.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G22300.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv19s0014g03640.t01 (Vitis vinifera), 3'ss of exon 14
gtgtgcaatttgtattgatgtatttatttattcttcaaa--gaatgttgtatacgtactgata-gtttcttgtatc--acttttcagAAAAACAGCTTTGAACAGTTTTATATAAATTATGCCAATGAGAGGATTCAACAACATTTTAATCGGCATCTGTTTAAACTTGAGCAGGAG
|| | ||||| ||| || | ||| | || ||| || |||| | | ||| | | | |||| | | | ||||||||| |||||||||||||| | | |||||| ||||| ||||||||| | ||||| ||||| ||||| ||||| ||||||| || ||||||
gtatacaattcacatttatctgcttagtcatgtttctaatggaatatgattataacactcacaaggatcttatcttcaaattttcagAAGAACAGCTTTGAACAACTCTGTATAAACTATGCAAATGAGAGGCTGCAACAGCATTTCAATCGTCATCTACTTAAACTCGAACAGGAG
upper sequence: GLYMA12G22300.1 (Glycine max), 3'ss of exon 14
lower sequence: PP1S174_120V6.1 (Physcomitrella patens), 3'ss of exon 13
-------------------------------gtgtgcaatttgtattgatgtatttatttattcttcaaagaatgttgtatacgtactgatagtttcttgtat-------------cacttttc----------agAAAAACAGCTTTGAACAGTTTTATATAAATTATGCCAATGAGAGGATTCAACAACATTTTAATCGGCATCTGTTTAAACTTGAGCAGGAG
|| ||| ||| | | | | ||| | || || | | | | | | |||| | | | ||| || || | |||| ||||| ||||| ||||| | ||||| ||||| || || ||| | ||||||||||| ||||| ||||||||||| |||||||| |||
gtgaaatcttctcatacactagaatgagattgtaagcagtttattattaattgtttcctgatctagtcaaagctttgatttctggattgatggctcttcttatggtctagcttaagcatttccctcctgattgcagAAGAACAGTTTTGAGCAGTTATGCATAAACTATGCAAACGAAAGGTTGCAACAACATTTCAATCGCCATCTGTTTAAGCTTGAGCAAGAG
upper sequence: GLYMA12G22300.1 (Glycine max), 3'ss of exon 14
lower sequence: PP1S228_18V6.1 (Physcomitrella patens), 3'ss of exon 13
-------------------------gtgtgcaatttgtattgatgtatttatttattcttcaaagaatgttgtatacgtactgatagtttcttgtatcacttttcagAAAAACAGCTTTGAACAGTTTTATATAAATTATGCCAATGAGAGGATTCAACAACATTTTAATCGGCATCTGTTTAAACTTGAGCAGGAG
| | |||| | | || | | || | | ||| ||||| || | | || | ||| | | ||| ||||||||||| ||||| || || | |||||||||||| ||||| ||| | ||||||||||| ||||| |||||||| || |||||||| |||
aggggtatcaggacctgaccaggtcttttacaatgtccactgtcgaa---atccacttttcgtagaattttttttgt---ctcaagctttactatggttcttg-cagAAAAACAGTTTTGAGCAATTATGTATAAATTATGCGAATGAAAGGTTGCAACAACATTTCAATCGTCATCTGTTCAAGCTTGAGCAAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattcttcaaagaatgttgtatacgtactgatagtttcttgtatcacttttcagAAAAACAGCTTTGAACAGTTTTATATAAATTATGCCAATGAGAGGATTCAACAACATTTTAATCGGCATCTGTTTAAACTTGAGCAGGAG
tactgat putative branch site (score: 2)
tcacttttc putative PPT
aaagaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgcaatttgtattgatgtatttatttattcttcaaagaatgttgtatacgtactgatagtttcttgtatcacttttcagAAAAACAGCTTTGAACAGTTTTATATAAATTATGCCAATGAGAGGATTCAACAACATTTTAATCGGCATCTGTTTAAACTTGAGCAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG