Sequence
atgc intronic sequence ATGC exonic sequencegtaagaacctttctttgtcttctttttttaaattgttttccaaggtggatggatattatgagtttattttgtgtatcagGTCGGCTTTCGGGTGTTATGGATGATAGAGGGAAATTTATTTACATCTCCCAAGAAGAGATGAAAGCCGTCGCTGATTATATTAAGCGGCAAGGGAGGGT
Basic information
species | Glycine max |
transcript | GLYMA12G34150.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G34150.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G27120.2 (Arabidopsis thaliana), 3'ss of exon 8
---------------------------------------------------------------------------------------gtaagaacctttctttgtctt-ctttttttaaattgttttccaaggtggatggatattatgagtttattttgtgtatcagGTCGGCTTTCGGGTGTTATGGATGATAGAGGGAAATTTATTTACATCTCCCAAGAAGAGATGAAAGCCGTCGCTGATTATATTAAGCGGCAAGGGAGGGT
|| ||| || || | | ||| | | | | | | | | || | || ||| ||||| ||||| ||||| || ||||||||||||||||||| |||||||| || ||||||||||| || || || ||||| || || || ||||| || ||
gtatttttctctctatccaattataaaaagagcatttgtctcatctggcagtctgtaatttgcgatgggtatagtaaacccgaagcaataggaataagcaggtgagacactgatgtgaaacaatgatgggacgcttaagaactgaacccattc-tcttttgt-tcagGGCGGCTCTCGGGGGTCATGGATGATAGAGGGAAATACATTTACATATCAATGGAAGAGATGAATGCGGTTGCAGATTACATCAAACGTCAAGGAAGAGT
upper sequence: GLYMA12G34150.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv19s0177g00150.t01 (Vitis vinifera), 3'ss of exon 7
------------gtaagaacctttctttgtc-----ttctttttttaaat-tgttttccaaggt---ggatggatattatgagtttattttgtgtatcagGTCGGCTTTCGGGTGTTATGGATGATAGAGGGAAATTTATTTACATCTCCCAAGAAGAGATGAAAGCCGTCGCTGATTATATTAAGCGGCAAGGGAGGGT
|| | | || | ||| || | || || || | | || || | | |||| ||| || | || || |||||| || || ||||| |||||||||||||| ||||| || |||||||| |||||||| ||| | || || ||||| ||||| ||||| || ||| ||||
catgaatttgaattatgcatctaatctagtcaagaatttaacatctagatatgcaatgcttagtcttgggaagtaactatggatttgttctctgcattagGTCGACTCTCTGGTGTCATGGATGATAGAGGAAAATTCATATACATCTCACAAGAAGAAATGCATGCTGTTGCTGACTATATCAAGCGTCAGGGGCGGGT
upper sequence: GLYMA12G34150.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S40_279V6.1 (Physcomitrella patens), 3'ss of exon 7
---------------------------------------------gtaagaacctttctttgtcttctttttttaaattgttttccaaggtggatggatattatgagtttattttgtgtatcagGTCGGCTTTCGGGTGTTATGGATGATAGAGGGAAATTTATTTACATCTCCCAAGAAGAGATGAAAGCCGTCGCTGATTATATTAAGCGGCAAGGGAGGGT
| || | ||| | || | | | | | || || | || |||| | |||||||| |||| || ||||||||||| || |||||||| |||||||| |||| ||| |||||||| || || |||||||| || ||||| | || | ||
gtaagactacaaagctagttattattgctgtctgcacggtatcttttcagggtgtgatgttgagcgtggacctgaagtaatgatattcacctgctcgacatctttgcattgtttt-catttcagGTCGTATTTCAGGAGTTATGGATGACAGGGGGAAATTCATTTACATTTCCCCAGAGGAGATGAAGGCGGTGGCTGATTACATCAAGCGTCTTGGTCGTGTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|21600577|gb|BQ610908.1|BQ610908EST: GAATGTATCAATCGCATCACATCTCTGGAAAGTATGG GTCGGCTTTCGGGTGTTATGGATGATAGAGGGAAATTTATTTACATCTCCC
genomic: GAATGTATCAATCGCATCACATCTCTGGAAAGTATGGgtaagaacct ... tgtgtatcagGTCGGCTTTCGGGTGTTATGGATGATAGAGGGAAATTTATTTACATCTCCC
EST:
gi|209696573|gb|BW672858.1|BW672858EST: GAATGTATCAATCGCATCACATCTCTGGAAAGTATGG GTCGGCTTTCGGGTGTTATGGATGATAGAGGGAAATTTATTTACATCTCCC
genomic: GAATGTATCAATCGCATCACATCTCTGGAAAGTATGGgtaagaacct ... tgtgtatcagGTCGGCTTTCGGGTGTTATGGATGATAGAGGGAAATTTATTTACATCTCCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttaaattgttttccaaggtggatggatattatgagtttattttgtgtatcagGTCGGCTTTCGGGTGTTATGGATGATAGAGGGAAATTTATTTACATCTCCCAAGAAGAGATGAAAGCCGTCGCTGATTATATTAAGCGGCAAGGGAGGGT
tttatttt CT-rich tract
atattatgagtttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaacctttctttgtcttctttttttaaattgttttccaaggtggatggatattatgagtttattttgtgtatcagGTCGGCTTTCGGGTGTTATGGATGATAGAGGGAAATTTATTTACATCTCCCAAGAAGAGATGAAAGCCGTCGCTGATTATATTAAGCGGCAAGGGAGGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT