Sequence
atgc intronic sequence ATGC exonic sequence...aattttggcattattattattattattattatttgtttagatttttattttgagaagtaaatgaatgagtgcatgtatggtgttgtgtattatggtgcagCAATAACAGCAGGGGGAAGGCGGAGCATGATGAAGCTGGCGCAGCGGATGACGAACAACTTCTGCGCGGGGGTGTGCGCGTCAACGGTGCACAAGTGGAA
Basic information
species | Glycine max |
transcript | GLYMA07G08340.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G08340.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv15s0048g02000.t01 (Vitis vinifera), 3'ss of exon 7
----aattttggcattattatta--ttattattattatttgtttagatttttattttgagaagtaaatgaatgagtgcatgtatggtg--------ttgtgtattatggt-gcagCAATAACAGCAGGGGGAAGGCGGAGCATGATGAAGCTGGCGCAGCGGATGACGAACAACTTCTGCGCGGGGGTGTGCGCGTCAACGGTGCACAAGTGGAA
| | | | || | || ||| || ||| |||||| || || | | || || | | || ||||| |||| | ||| | ||||||||||| ||||| || ||||||||||| |||||||||| || || ||||| ||||||||||||| || || ||||| ||||| || ||||| ||
gtagtgtcaggaaaatgcagctagctctttgttaaagcttttttgaatttttcgttagacagtgagatcaaggtcta-atacgtggtgccgcctttttgttaaatatactagCAGCAATAACTGCAGGCGGGCGGCGGAGCATGCTGAAGCTGGCCCAACGAATGACCGACAACTTCTGCGCCGGTGTCTGCGCTTCAACAGTCCACAAATG---
upper sequence: GLYMA07G08340.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ10492 (Selaginella moellendorffii), 3'ss of exon 8
-------------------------------------------------------------------------aattttggcattattattattattattattatttgtttag----atttttattttgagaagtaaatgaatgagtgcatgtatggtgttgtgtattatggtgcagCAATAACAGCAGGGGGAAGGCGGAGCATGATGAAGCTGGCGCAGCGGATGACGAACAACTTCTGCGCGGGGGTGTGCGCGTCAACGGTGCACAAGTGGAA
| | || | | | | || |||||| | ||| || || | | || | | | ||| | | ||| || | | |||| || | || | ||||||||| | ||| |||||||||| |||||||| |||||||||||||| ||| | ||||| || ||||||| ||
gtagtactttctttcctcttccatcttttctttcgaagaacttagagagaggagggaacaaaaaaatgctttttttctcagctggttcttccccctcctctttgtttgttcacgggcattgtttttcttcctcggctttgtttaatggtttgttttgctttgctgccagTGATACC-CAAT----GCGAGTGGCCGCCGGAGCATGCTCAAGTTGGCGCAGCGCATGACGAATAACTTCTGCGCGGGCGTGAGTGCGTCCACTGTGCACACTTG---
upper sequence: GLYMA07G08340.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ19972 (Selaginella moellendorffii), 3'ss of exon 8
-------------------------------------------------------------aattttggcattattatta--ttattattattatttgtttagatttttattttgagaagtaaatgaat-----gagtgcatgta-tggtgttgtgtattatggtgc-agCAATAACA---GCAGGGGGAAGGCGGAGCATGATGAAGCTGGCGCAGCGGATGACGAACAACTTCTGCGCGGGGGTGTGCGCGTCAACGGTGCACAAGTGGAA
|| || || || | | | || || | | | ||| | | | | | | | | | | | || |||| | | | | |||||| || ||| | || | || | ||||||||| | ||| |||||||||| |||||||| |||||||||||||| ||| | ||||| || ||||||| ||
gtagtactttctttcctcttccatcttttctttcgaagaacttagagagaggagggaacaaaaaaatgctttttttctcagctggttcttccccctcctctttgtttgt-tcacgggcattgtttttcttcctcggctttgtttaatggtttgttttgctttggtgccagTGATACCCAATGCGAGTGGCCGCCGGAGCATGCTCAAGTTGGCGCAGCGCATGACGAATAACTTCTGCGCGGGCGTGAGTGCGTCCACTGTGCACACTTG--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattttgagaagtaaatgaatgagtgcatgtatggtgttgtgtattatggtgcagCAATAACAGCAGGGGGAAGGCGGAGCATGATGAAGCTGGCGCAGCGGATGACGAACAACTTCTGCGCGGGGGTGTGCGCGTCAACGGTGCACAAGTGGAA
taaatgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattttggcattattattattattattattatttgtttagatttttattttgagaagtaaatgaatgagtgcatgtatggtgttgtgtattatggtgcagCAATAACAGCAGGGGGAAGGCGGAGCATGATGAAGCTGGCGCAGCGGATGACGAACAACTTCTGCGCGGGGGTGTGCGCGTCAACGGTGCACAAGTGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - ggcatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtgttg