Sequence
atgc intronic sequence ATGC exonic sequencegtttgtagtggatcttgtattgaattttttgtttcattttacaaattttgatcaggcttcctatttatcaagttttgacatgaaatccataaaattctgtttaagGTGGTATGCTAAACGCTTTCTGCATCCTGACATTGTGGCTCCTTATGACTACATCTTTATTTGGGATGAGGATCTTGGTGTGGAGCATTTTGATGCAGAA
Basic information
species | Glycine max |
transcript | GLYMA19G08270.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G08270.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G27470.1 (Arabidopsis thaliana), 3'ss of exon 7
gtttgtagtggatcttgtattgaattttttgtttcattttacaaattttgatcaggcttcctat-ttatcaagttttgacatga-aatccataaaattctgtttaagGTGGTATGCTAAACGCTTTCTGCATCCTGACATTGTGGCTCCTTATGACTACATCTTTATTTGGGATGAGGATCTTGGTGTGGAGCATTTTGATGCAGAA
|||||| | || | | || || | | | | || || | | || | || || | | |||| || || || | ||||||||| ||||| || ||||| ||||||||||| || || || ||||| || ||||| || ||||||||||||||||| ||||| || |||||| | |||
---gttagtggcctctttactaagcaggaacgccaatcttct---tcctagtaggagtttctttgtcatgacagatttacttaacaatctatgaattttccctgaagGTGGTACGCTAAGCGATTTCTTCATCCTGACATAGTTGCCCCCTATGAATATATCTTCATATGGGATGAGGATCTTGGCGTGGAACACTTTGATTCGGAA
upper sequence: GLYMA19G08270.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv14s0066g00310.t01 (Vitis vinifera), 3'ss of exon 5
----gtttgtagtggatcttgtattgaatttt----ttgtttcatttta--------caaattttgatcaggcttcctatttatcaagttttgacatgaaatccataaaattctgtttaagGTGGTATGCTAAACGCTTTCTGCATCCTGACATTGTGGCTCCTTATGACTACATCTTTATTTGGGATGAGGATCTTGGTGTGGAGCATTTTGATGCAGAA
|| || | ||| | | ||||| || | ||||| || ||| | || | | ||| ||||| || || ||| | ||||| || |||||||||||| || || ||| ||||||||||||||||||| || ||||||||||| ||||| |||||||| || ||||| |||||||||||||||||||||
gtgggtagctactttatcctcttaagaattccaaacttttatcattataggccatagtggattatcattgaggcatattgaagtcatgttttt-cacgac-tccctgaaatttgcttcaagGTGGTATGCCAAGCGGTTTTTGCATCCTGACATTGTGGCACCCTATGACTACATATTTATGTGGGATGAAGACCTTGGGGTGGAGCATTTTGATGCAGAA
upper sequence: GLYMA19G08270.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S129_53V6.1 (Physcomitrella patens), 3'ss of exon 7
gtttgtagtggatcttgtattgaattttttgtttcattttacaaattttgatcaggcttcctatttatcaagttttgacatgaaatccataaaattctgtttaagGTGGTATGCTAAACGCTTTCTGCATCCTGACATTGTGGCTCCTTATGACTACATCTTTATTTGGGATGAGGATCTTGGTGTGGAGCATTTTGATGCAGAA
| || | | || || | | | || |||| | || | || || | || | || | ||||| ||||||||||| || || ||| |||| || || | ||||| || ||||| |||||||| ||||||||||||||||||| | || ||||||| || | |
-tctg-attagacacccgatccgacaataattcctggcttgt---ttttattttattttttttgttttcggaatcggatttattgattattgtttgctgttatagGTGGTATGCCAAGCGGTTTTTGCACCCCGATGTAGTGGCGCCGTATGAGTACATCTTCATTTGGGATGAGGATCTTGATTTGAGGCATTTTAATCCTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcaggcttcctatttatcaagttttgacatgaaatccataaaattctgtttaagGTGGTATGCTAAACGCTTTCTGCATCCTGACATTGTGGCTCCTTATGACTACATCTTTATTTGGGATGAGGATCTTGGTGTGGAGCATTTTGATGCAGAA
ttttgac putative branch site (score: 3)
ttctgttt putative PPT
ataaaattctgtttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtagtggatcttgtattgaattttttgtttcattttacaaattttgatcaggcttcctatttatcaagttttgacatgaaatccataaaattctgtttaagGTGGTATGCTAAACGCTTTCTGCATCCTGACATTGTGGCTCCTTATGACTACATCTTTATTTGGGATGAGGATCTTGGTGTGGAGCATTTTGATGCAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA