Sequence
atgc intronic sequence ATGC exonic sequence...cttttaatgtatcataaatgatagccaccttctcattttcataactgaattttcactgctgcttttcagttgttaattttctcgttatgtatggtcacagATATCAAAACTGAGCATGATTCCAGTGGTTTGTGTGATGGAATGGATACTTCACAACAAGCACTACTCAAGGGAAGTGAAAATGTCAGTGGTGGTTGTGG
Basic information
species | Glycine max |
transcript | GLYMA01G45700.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G45700.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G42420.1 (Arabidopsis thaliana), 3'ss of exon 2
-------cttttaatgt--atcataaatgatagccaccttctcattttcat--aactgaattttcactgctgcttttcagttgttaattttctcgttatgtatggtcac-agATATCAAAACTGAGCATGATTCCAGTGGTTTGTGTGATGGAATGGATACTTCACAACAAGCACTACTCAAGGGAAGTGAAAATGTCAGTGGTGGTTGTGG
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gtaattcatctcgatctcgatcttgagcatatagaatcaaattgctttgatttgagcatatatagact-ttgattttggtttagtggattcacatttttttgtgttgattagATCTCGAAGCTGAGCATGATTCCTGTGGTATGTGTAATGGAATGGATTCTACATAGCAAGAGATACTCAAGAGAAGTGAAAATATCTGTTGTGGTTGTTG
upper sequence: GLYMA01G45700.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G21070.1 (Arabidopsis thaliana), 3'ss of exon 2
cttttaatgtatcataaatgatagccaccttctcattttcataactgaattttcactgctgcttttcagttgttaattttctcgttatgtatggtc---acagATATCAAAACTGAGCATGATTCCAGTGGTTTGTGTGATGGAATGGATACTTCACAACAAGCACTACTCAAGGGAAGTGAAAATGTCAGTGGTGGTTGTGG
| | | || | || | || ||| || |||| || | | ||| | | | ||| || || | | | || ||| || | | ||||||| ||| |||||||||||||||| |||||||||||||||||| | || || | ||||| ||||| || |||||||| || || ||||||| |
-gtaaagcttctctttgattttg--cattttcccaatttctcaatttagcttttaagatggttcttc---tgatagtc--cacattgtgtttgatttcaatagATATCGAAATTGAGCATGATTCCAGTTGTTTGTGTGATGGAATGGGTTCTACATAGTAAGCATTACTCGAGAGAAGTGAAGGCATCTGTCATGGTTGTTG
upper sequence: GLYMA01G45700.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0122g00090.t01 (Vitis vinifera), 3'ss of exon 2
cttttaatgtatcataaatgatagccaccttctcattttcataactgaattttcactgctg-cttttcagttgttaattttctcgttatgtatg-gtcacagATATCAAAACTGAGCATGATTCCAGTGGTTTGTGTGATGGAATGGATACTTCACAACAAGCACTACTCAAGGGAAGTGAAAATGTCAGTGGTGGTTGTGG
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ctgtttcagaagcagcacttaatgtaatttgttcaaagaagtgcaagaattt--gatgctaactctccatgtaaaacttgccttgttctatctgtggtgcagATTTCAAAACTGAGCATGATTCCAGTGGTATGTGTGATGGAATGGATCCTTCATAACAAACACTACTCTAGGGAAGTGAAGATTTCTGTGGTGGTTGTGGMapped 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|7326713|gb|AW620511.1|AW620511EST: TCACGGGGATGAACTTTAGCCTCATGCTCAACTCCGTTGGATTCTACCAA ATATCAAAACTGAGCATGATTCCAGTGGTTTGTGTGATGGAATGGATACTT
genomic: TCACGGGGATGAACTTTAGCCTCATGCTCAACTCCGTTGGATTCTACCAAgtatggtttt ... atggtcacagATATCAAAACTGAGCATGATTCCAGTGGTTTGTGTGATGGAATGGATACTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaattttcactgctgcttttcagttgttaattttctcgttatgtatggtcacagATATCAAAACTGAGCATGATTCCAGTGGTTTGTGTGATGGAATGGATACTTCACAACAAGCACTACTCAAGGGAAGTGAAAATGTCAGTGGTGGTTGTGG
tgttaat putative branch site (score: 3)
ttgttaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttttaatgtatcataaatgatagccaccttctcattttcataactgaattttcactgctgcttttcagttgttaattttctcgttatgtatggtcacagATATCAAAACTGAGCATGATTCCAGTGGTTTGTGTGATGGAATGGATACTTCACAACAAGCACTACTCAAGGGAAGTGAAAATGTCAGTGGTGGTTGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - -ccttctc
- - - - - - - - - - - - - - - - - - - - - - - - - - -cactgct