Sequence
atgc intronic sequence ATGC exonic sequencegtaaattacagaaccttcttttgattgttggaagtccttgatgttaatctggcacataattgtcattttcattttctatgtatatcaagGTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGATTGCCACCAAAAAAGGAAACTATTCTTAAAGTAGGCATGTCCCAAATGC
Basic information
species | Glycine max |
transcript | GLYMA15G10370.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 8
---gtaaattacagaaccttcttttgattgttggaagtccttgatgttaatctggcacataattgtcattttcattttctatgtatatcaagGTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGATTGCCACCAAAAAAGGAAACTATTCTTAAAGTAGGCATGTCCCAAATGC
| ||| | | || | || | | ||| || | ||||| | | | || | | | | | | || | ||||| || || |||||||| ||||| ||| | || || |||||||||||||| || |||||||||||||||||||| |||||||| || ||||| | ||||
gtaacagatttgatatccatattctca--attgatagatc---atgttggttttccttgta-tgatttgtgtaacatgttacacttg--aagGTTCTTCGTCCATTTCTGCTTCGGAGGCTTAAATCTGATGTTGAGAAAGGTTTACCACCAAAAAAGGAAACTATACTTAAAGTTGGAATGTCTGAGATGC
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 8
gtaaattacagaaccttcttttgattgttggaagtccttgatgttaatctggcacataattgtcattttcattttc-----tatgtatatcaagGTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGATTGCCACCAAAAAAGGAAACTATTCTTAAAGTAGGCATGTCCCAAATGC
|| | | | | ||| || || | ||| || | |||| ||| ||| | || |||||| | | ||| ||||| || || |||||||| ||||||||| | || || |||||||| || ||||| || || |||||||||||||| ||||| || || ||||| || ||||
gtgagtaatataac--tcccatgctcaatggctcattatgctaataatttgggaca-acctgcatagttcattcatgtaaattcttctatgaagGTTCTTCGCCCATTTCTTCTTCGAAGGCTTAAATCTGATGTTGAAAAGGGATTACCCCCCAAAAAGGAAACTATCCTTAAGGTTGGAATGTCTCAGATGC
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaaattacagaaccttcttttgattgttggaagtccttgatgttaatctggcacataattgtcattttcattttctatgtatatcaagGTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGATTGCCACCAAAAAAGGAAACTATTCTTAAAGTAGGCATGTCCCAAATGC
| | | || | || | | || || ||| | | || | |||||| | | ||| |||| ||| || ||||||||||| ||||| ||||| || |||||||| |||||||| || || ||||||||||| || || || ||||| |||||||| |||||||
----------gtatgtactcatattttatcaaggttatt--ctctaagtt--cttatgctaatcatttacctcatctttgta------gGTTCTGCGACCATTTCTTCTTCGGAGGTTAAAATCAGATGTAGAGAAAGGCTTACCTCCAAAAAAGGAGACAATACTCAAAGTTGGCATGTCTCAAATGC
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaaattacagaaccttcttttgattgttggaagtccttgatgtta-atctggcacataattgtcattttcattttctatgtatatcaagGTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGATTGCCACCAAAAAAGGAAACTATTCTTAAAGTAGGCATGTCCCAAATGC
|| || | | || ||| ||| | |||| | || | || || | || | ||| | | | | | |||| || ||||||||||| |||||||| | |||||||||||||||||||| |||||||| || ||||| || || |||||||| || ||||| || ||||
-----gtatggatgcacccattccttgcattgagtttattctgttctgtgtgagtcgtag--gttaattgc-tttcatgtatctttttagGTTCTTCGACCATTTCTTCTTCGAAGACTAAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAGAAGGAGACCATACTTAAAGTTGGTATGTCTCAGATGC
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 8
gtaaattacagaaccttcttttgattgttggaagtccttgatgttaatctggcacataattgtcattttcattttctatgtatatcaagGTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGATTGCCACCAAAAAAGGAAACTATTCTTAAAGTAGGCATGTCCCAAATGC
||||| || |||| || | || || | | | | || || |||| | | ||| | || | ||| | | |||||||||| || || |||||||| || |||||||||||||||||||||| ||||| |||||||||||||| || ||||||||||||||||| ||| |||
gtaaacc-caagacctcctaat--tttttagctctaccttat-ttcatctcatttactgaaatggtttctgtatt-tctgt-tttttagGTCCTCCGGCCTTTCCTCCTTCGGAGACTGAAGTCAGATGTTGAGAAAGGCTTGCCTCCAAAAAAGGAAACAATACTTAAAGTAGGCATGTCTCAATTGC
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 7
gtaaattacagaaccttcttttgattgttggaagtccttgatgttaatctggcacata-attgtcattttcattttctatgtatatcaagGTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGATTGCCACCAAAAAAGGAAACTATTCTTAAAGTAGGCATGTCCCAAATGC
| | ||| | || | || | | ||| | | |||| | || || || || | ||||||||||||||||||||||| || || |||| || || |||||||| ||||| || || |||||||| ||||||
----------------------------------------gtatgaatgagcgctatgcgctatcgtcgatgctgataatgattttacagGTGTTGCGGCCTTTCCTTTTGCGAAGGTTGAAGTCAGATGTTGAAAAGGGGCTGCCTCCCAAGAAGGAAACAATTCTCAAGGTTGGCATGTCAAAAATGCMapped 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|207797664|gb|GD771476.1|GD771476EST: AAATCTCTGGTGAAAATGATCAACAGGAGGTTGTTCAACAATTACACAAG GTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAAGG
genomic: AAATCTCTGGTGAAAATGATCAACAGGAGGTTGTTCAACAATTACACAAGgtaaattaca ... gtatatcaagGTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAA-GG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccttgatgttaatctggcacataattgtcattttcattttctatgtatatcaagGTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGATTGCCACCAAAAAAGGAAACTATTCTTAAAGTAGGCATGTCCCAAATGC
tgttaat putative branch site (score: 3)
attttcattttctatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaattacagaaccttcttttgattgttggaagtccttgatgttaatctggcacataattgtcattttcattttctatgtatatcaagGTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGATTGCCACCAAAAAAGGAAACTATTCTTAAAGTAGGCATGTCCCAAATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA