Sequence
atgc intronic sequence ATGC exonic sequencegtaattctgtgttttacctattcattcttgtgtgtattttacctattcattcttgtatactactaattgttaaatgttaaaataatttttattttgagtaaccagGACTGCTTGTGTAATTGCTGTTGCGAAGGCTCGTGACACATTTGAACCTTTTCTTCATCAG
Basic information
species | Glycine max |
transcript | GLYMA08G07990.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G07990.2 (Glycine max), 3'ss of exon 8
lower sequence: AT3G19720.2 (Arabidopsis thaliana), 3'ss of exon 10
----------------------------------gtaattctgtgttttacctattca--ttcttgtgtgtattttacctattcattcttgtatactactaattgttaaatgttaaaataatttttattttgagtaac----cagGACTGCTTGTGTAATTGCTGTTGCGAAGGCTCGTGACACATTTGAACCTTTTCTTCATCAG
|||| ||| || | || | | | |||| | | || | || | | | || || | || | ||| | || | || || |||||||| || || ||||||||||||||||| || ||||||||||| |||||||||
gtatcataggattgactgacatgcaacacacttctcaatttattgtctttgcatcccagacccctttcagtatctaatctgagctgcaacgtttgtca-tgttttctatggcctcttattctctttctcttatttgctgttgtagAACAGCTTGTGTTATAGCAGTTGCGAAGGCTCGTGAGACGTTTGAACCTTTCCTTCATCAG
upper sequence: GLYMA08G07990.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv12s0055g00490.t01 (Vitis vinifera), 3'ss of exon 10
-------gtaattctgtgttttacctattcattcttgtgtgtattttacctattcattcttgtatactactaattgttaaatgttaaaataatttttattttgagtaaccagGACTGCTTGTGTAATTGCTGTTGCGAAGGCTCGTGACACATTTGAACCTTTTCTTCATCAG
| | || | | | | || | | || | || | | | || | |||||| || ||| |||||| | ||| || || ||||||||||| || |||||||| |||||||| || ||||||||||||||||||||||||
gtatccatggacctcaagcttaatcaaaactttgtaacaacttcttatcgtaatagcattgctttatttctaatt-ttccttgtctc--ctatttttttcctgaaaaattagAACTGCTTGTGTGATAGCTGTTGCAAAGGCTCGAGATACATTTGAACCTTTTCTTCATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgtatactactaattgttaaatgttaaaataatttttattttgagtaaccagGACTGCTTGTGTAATTGCTGTTGCGAAGGCTCGTGACACATTTGAACCTTTTCTTCATCAG
tactaat putative branch site (score: 1)
tatactactaattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattctgtgttttacctattcattcttgtgtgtattttacctattcattcttgtatactactaattgttaaatgttaaaataatttttattttgagtaaccagGACTGCTTGTGTAATTGCTGTTGCGAAGGCTCGTGACACATTTGAACCTTTTCTTCATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT