Sequence
atgc intronic sequence ATGC exonic sequence...ctctaaaactaggtggtgtgatatagtgcatccctttaaattagtcttatgctagaggaaagttgtttttatcaacgagtcttctcggtgttaaatgcagCAACTTTACCAGAAAGCACTCACTATTAAGTCAGCAATTCCCCATCCGCGGATAATGGGAATAATCCATGAATGTGGAGGGAAAATGCATATGGCAGAGC
Basic information
species | Glycine max |
transcript | GLYMA19G30100.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G30100.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0040g00430.t01 (Vitis vinifera), 3'ss of exon 6
ctctaaaactaggtggtgtgatatagtgcatccctttaaat-tagtcttatgctagaggaaagttgtttttatcaa---cgagtcttctcggtg--ttaaatgcagCAACTTTACCAGAAAGCACTCACTATTAAGTCAGCAATTCCCCATCCGCGGATAATGGGAATAATCCATGAATGTGGAGGGAAAATGCATATGGCAGAGC
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------atttttctggagtcataacttccatacatttgcctgctattttgtatgctgtatcaattgtattgactgagttttatccaactacatggattaactgcagCAACTATACCAGAAAGCACTTACAATCAAATCAGCCATACCCCATCCAAGAATAATGGGGATAATTCATGAATGTGGTGGGAAAATGCATATGGCAGAGC
upper sequence: GLYMA19G30100.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S90_192V6.1 (Physcomitrella patens), 3'ss of exon 6
------------------------------------------------------------------------------------------ctctaaaact---aggtggtgtgatatagtgcatccctttaaattagtc-ttatgctagaggaaagttgtttttatcaacgagtcttctcggtgttaaat--gcagCAACTTTACCAGAAAGCACTCACTATTAAGTCAGCAATTCCCCATCCGCGGATAATGGGAATAATCCATGAATGTGGAGGGAAAATGCATATGGCAGAGC
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gttttttcaaccagattcccacgtgcagtctaccttgttttgatttgatgaaacaatttatattctgtttaagccgtgttatcataggatctctcaacccttcattttcggtgtcaaaatttatagttgtgggtaagtggttaatatgtttactttttagggtttgtgctgattctctctggtataaactttgcagCAACTATATCTAAAAGCGTTGAACATCAAGTCTGCAATTCCACATCCGCGCATTATGGGGATTATCCACGAATGTGGAGGCAAAATGAACATGGCTGAGC
upper sequence: GLYMA19G30100.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S105_216V6.1 (Physcomitrella patens), 3'ss of exon 6
--------------------------------------------------------------------------------------ctctaaaactaggtggtgtgatatagtgcatccctttaaattag--tcttatgctagaggaaagttgtttttatcaacgagtcttctcggtgttaaa--tgcagCAACTTTACCAGAAAGCACTCACTATTAAGTCAGCAATTCCCCATCCGCGGATAATGGGAATAATCCATGAATGTGGAGGGAAAATGCATATGGCAGAGC
||| | | | | | || | | | || || | ||| | | | | ||| ||| | |||| | | || || |||||||||| |||| |||||| || | || ||||| || ||||| ||||| || || ||||| || ||||| |||||||||||||||||| | ||||| ||||
gttagttcaagtgaaaccttcaattgaaattctgtgacctaagctctgctaccagatctagtggaactaaaaaaattaattattcattcttgacattgtagcaataggatctcgaagtcgttagtgttggaatctcgtatattggtataagagttagtatttat---tctttttagcgtgaaccttgcagCAACTATACCTGAAAGCGCTGAACATAAAGTCTGCTATTCCGCATCCACGCATTATGGGGATCATCCACGAATGTGGAGGGAAAATGAACATGGCTGAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttatgctagaggaaagttgtttttatcaacgagtcttctcggtgttaaatgcagCAACTTTACCAGAAAGCACTCACTATTAAGTCAGCAATTCCCCATCCGCGGATAATGGGAATAATCCATGAATGTGGAGGGAAAATGCATATGGCAGAGC
aaagttgtttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctctaaaactaggtggtgtgatatagtgcatccctttaaattagtcttatgctagaggaaagttgtttttatcaacgagtcttctcggtgttaaatgcagCAACTTTACCAGAAAGCACTCACTATTAAGTCAGCAATTCCCCATCCGCGGATAATGGGAATAATCCATGAATGTGGAGGGAAAATGCATATGGCAGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - aaaactag
- - - - - - -tggtgtg
- - - - - - - - - - - - - -gcatccc
- - - - - - - - - - - - - - - - - - - - - - -cttatgc