Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgtatactagttatagcgtttaagtgcatccaatgaacaatttaattgttagatttttaagtttgtgggccttgcttccttctttctctcacatacttaatgactagGGTGGTGATCATACTGAAATTGGTGAAAGAGGGGTAAACATCAGTGGTGGCCAAAAGCAGAGAGTATCCATGGCTAGAGCTGTCTACTCAAATTCTGATG
Basic information
species | Glycine max |
transcript | GLYMA13G29180.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 18
lower sequence: AT2G34660.1 (Arabidopsis thaliana), 3'ss of exon 18
gtgagtgtatactagttatagcgtttaagtgcatccaatgaacaatttaattgttagatttttaagtttgtgggccttgcttccttctttctctcacatacttaatgactagGGTGGTGATCATACTGAAATTGGTGAAAGAGGGGTAAACATCAGTGGTGGCCAAAAGCAGAGAGTATCCATGGCTAGAGCTGTCTACTCAAATTCTGATG
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----gtaagttttgaggagagcttcgtggagttgataacaaggatttgtcttgcctg-ttctcgtgttgctaagt-ttgtttcaacctctttctc--ttgcttaat----agGGTGGTGATCTCACGGAGATTGGAGAAAGAGGTGTTAATATCAGTGGAGGACAGAAGCAGAGGGTTTCCATGGCTAGGGCCGTTTACTCAAATTCAGATG
upper sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 18
lower sequence: AT1G30400.2 (Arabidopsis thaliana), 3'ss of exon 18
-----------------------------------------------------------------------gtgagtgt-atactagtt-atagcgtttaagtgcatc----caatgaacaattta-attgttagatttttaagtttgtgggcctt-gcttccttctttctctcacatacttaatgactagGGTGGTGATCATACTGAAATTGGTGAAAGAGGGGTAAACATCAGTGGTGGCCAAAAGCAGAGAGTATCCATGGCTAGAGCTGTCTACTCAAATTCTGATG
|| ||| || | | | | | || |||||| | | | | | | | || || | | | | || |||| ||| | ||| | ||| || ||||| ||||| | || || || || ||||| || || ||||||||||| || ||||||||||| || || |||||||| || || ||||||||||| || |
gtaagttttgtggagagttacttagccatgtgcattgaaaatttcctgaggtgaaacgaaccttgaaatctgttggtgcgatgtaaatcgaaaaaactgaattgcatcagttctgttgatagcatgtacttctattttctagtgctcaggtatctaagcttgtttcctcttctttc--tcttgattgatagGGAGGTGACCTCACGGAGATCGGAGAAAGGGGTGTTAACATCAGTGGGGGACAAAAGCAGAGGGTTTCTATGGCTAGGGCCGTTTACTCAAATTCAGACG
upper sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 18
gtgagtgtatact----agttatagcgtttaagtgcatccaatgaacaatttaattgttagatttttaa--gtttgtgggccttgcttccttctttctctcacatacttaatgactagGGTGGTGATCATACTGAAATTGGTGAAAGAGGGGTAAACATCAGTGGTGGCCAAAAGCAGAGAGTATCCATGGCTAGAGCTGTCTACTCAAATTCTGATG
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gtaagtttgttctcaagagttgtatcatgttgcagt-tctcttgaatttgcaaattcctgtattactcatagtttgtggccgtatattttttggtcatcttacattcttatttgttagGGTGGTGATCTTACTGAGATTGGTGAAAGGGGGGTGAATATTAGTGGTGGTCAAAAGCAACGAGTTTCCATGGCTAGGGCAGTATATTCCAATTCAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttttaagtttgtgggccttgcttccttctttctctcacatacttaatgactagGGTGGTGATCATACTGAAATTGGTGAAAGAGGGGTAAACATCAGTGGTGGCCAAAAGCAGAGAGTATCCATGGCTAGAGCTGTCTACTCAAATTCTGATG
ccttgcttccttcttt CT-rich tract
atacttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgtatactagttatagcgtttaagtgcatccaatgaacaatttaattgttagatttttaagtttgtgggccttgcttccttctttctctcacatacttaatgactagGGTGGTGATCATACTGAAATTGGTGAAAGAGGGGTAAACATCAGTGGTGGCCAAAAGCAGAGAGTATCCATGGCTAGAGCTGTCTACTCAAATTCTGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT