Sequence
atgc intronic sequence ATGC exonic sequence...atagtttagcttttatattatcacatcattatttatttggtttgtttgtttattagcaatggtcaacattttgaaattcttgagttggtcatgcttgcagATTGTGAATGGAAAGCACAAGCAGGCAACGTTTGTGTTGCTTCATTTGATTGGACGTGCAGTGGAATTTGCAGGTCTGCTGAAAGGATCAAAGAGGTTCA
Basic information
species | Glycine max |
transcript | GLYMA13G38500.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G38500.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G05170.1 (Arabidopsis thaliana), 3'ss of exon 10
-----atagtttagct--tttatattatcacatcattatttatttggtttgtttgtttattagcaatggtcaacattttgaaattcttgagttggtcatgcttgcagATTGTGAATGGAAAGCACAAGCAGGCAACGTTTGTGTTGCTTCATTTGATTGGACGTGCAGTGGAATTTGCAGGTCTGCTGAAAGGATCAAAGAGGTTCA
| | || | |||| || | ||| | || | | | | | | | | || || || ||| | || | | |||||||||| ||||||||||||||||| || ||| | ||||| || ||||| || |||| ||||| ||||| ||||| || || || | ||||||||||||||
taccaagaacctaaatgatttaagtt-tgacaataacatcaa----atctttcaacctgaaacatactgaaaatatgttaaaagattcagttttg--gtatttgcagATTGCGAATGGAAAGCACAAGCTGGAAACATCTGTGTAGCATCATTCGACTGGAGCTGCAGCGGAATCTGCAGATCCGCAGATCGCATCAAAGAGGTTCA
upper sequence: GLYMA13G38500.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G32430.1 (Arabidopsis thaliana), 3'ss of exon 10
-------------------------------------------------------------------------------------------atagtttagcttttatattatcacatcattatttatttgg-tttgtttgtttattagcaatggt-caacattt-tgaaattcttgagttggtcatgcttgcagATTGTGAATGGAAAGCACAAGCAGGCAACGTTTGTGTTGCTTCATTTGATTGGACGTGCAGTGGAATTTGCAGGTCTGCTGAAAGGATCAAAGAGGTTCA
|| | | || | || | | | | || | | | || ||| || | ||| | | || |||| ||||| | ||||||||||||||||||| ||||||||||||||| | ||||| |||||||| || |||||||| || || || ||||| || ||||| |||| |||||||||||
gtaccttccttcaaatatctatagactcagttcaatacatcttagatgattgtgaagtggtaaaaggttaaacttagttagttctatgcacctaactagaatgtttttttttaaaacaaaccttaaccagaatctggatgtaaat-ggtaatcatatgatatacactaaatatgattcttggtga--attgcagATTGTGAATGGAAGGCACAAGCAGGCAACATATGTGTAGCTTCATTCGACTGGACGTGTAGCGGTATCTGCAGATCAGCTGATCGGATAAAAGAGGTTCA
upper sequence: GLYMA13G38500.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 10
atagtttagcttttatattatcacatcattatttatt-tggtttgtttgt--ttattagcaatggtcaacattttgaaattcttgagttggtcatgct--tgcagATTGTGAATGGAAAGCACAAGCAGGCAACGTTTGTGTTGCTTCATTTGATTGGACGTGCAGTGGAATTTGCAGGTCTGCTGAAAGGATCAAAGAGGTTCA
| | | ||| | | | || |||| || | |||| | |||| | || | || | | | || | |||||||||||| ||||| || || |||||||| | |||||||||||||||||||||| |||||||||||||||||||| |||| ||||| || ||||| ||
-----cacgtgtacaagctatgggaaagatttgcatgacaagctgttgacaacaatcaacaattatacacatctgtgaaattttaattgaaacttgttactgcagATTGTGAGTGGAAGGCCCAGGCAGGCAATGCATGTGTTGCTTCATTTGATTGGAGCTGCAGTGGAATTTGCAGGTCATCTGAGAGGATTAAGGAGGTCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtttattagcaatggtcaacattttgaaattcttgagttggtcatgcttgcagATTGTGAATGGAAAGCACAAGCAGGCAACGTTTGTGTTGCTTCATTTGATTGGACGTGCAGTGGAATTTGCAGGTCTGCTGAAAGGATCAAAGAGGTTCA
aacattttgaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atagtttagcttttatattatcacatcattatttatttggtttgtttgtttattagcaatggtcaacattttgaaattcttgagttggtcatgcttgcagATTGTGAATGGAAAGCACAAGCAGGCAACGTTTGTGTTGCTTCATTTGATTGGACGTGCAGTGGAATTTGCAGGTCTGCTGAAAGGATCAAAGAGGTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - -cacatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - agcaatg