Sequence
atgc intronic sequence ATGC exonic sequencegtatgtaaaatttagtatctggagtatgtttttctttttctcagacatgctaacatgtctctcctttgtactactaatattctcatttttcaaatactttgattatcagCTCCTCAAGAAATCGATGAATATGAACTTGTTGATCCTGTTGATATATTGACTCCTTTAGAGAAGTCAGGATTTTGGGATGGAGTT
Basic information
species | Glycine max |
transcript | GLYMA15G29520.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G29520.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g60040.1 (Oryza sativa), 3'ss of exon 7
gtatgtaaaatttagtatctggagtatgtttttctttttctcagacatgctaacatgtctctcctttgtactactaatattctcatttttcaaatactttgattatcagCTCCTCAAGAAATCGATGAATATGAACTTGTTGATCCTGTTGATATATTGACTCCTTTAGAGAAGTCAGGATTTTGGGATGGAGTT
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---------------------------gtttgttgcttagctgaacattttcagtgttagttcatttctattacctacatgaatactgacacaattatttgtc---cagCCCCTATGGAGATCGATGAATACGATCTTGTTGATCCTGTTGATATCTTAACACCACTTGAGAAGTCTGGATTTTGGGATGGTGTG
upper sequence: GLYMA15G29520.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 7
gtatgtaaaatttagtatctggagtatgtttttctttttctcagacatgctaacatgtctctc----ctttgtacta-ctaatattctcatttttcaaatactttgattat-cagCTCCTCAAGAAATCGATGAATATGAACTTGTTGATCCTGTTGATATATTGACTCCTTTAGAGAAGTCAGGATTTTGGGATGGAGTT
|| |||| |||| | | || | || |||| ||||| | | ||||| | | | | | ||| || | | | |||| ||| || |||||||||||||| |||||||||||||| || || || || || |||| ||||| ||||| ||||| || ||
-----------------------gtgtgttcttctgaggattatttatctggatattgctcttggtagtttgttcaaactaatgatggaaatacttatataattctactttgcagCCCCTGTGGAGATCGATGAATATGACCTTGTTGATCCTGTAGACATTTTAACCCCACTAGAAAAGTCTGGATTCTGGGACGGTGTG
upper sequence: GLYMA15G29520.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv10s0116g00490.t01 (Vitis vinifera), 3'ss of exon 7
----------------------------------------------------------------------------------gtatgtaaaatttagtatctggagtat-gtttttctttttctcagac-atgctaacatgtctctcctttgtactactaatattctcatttttcaaatactttgattatcagCTCCTCAAGAAATCGATGAATATGAACTTGTTGATCCTGTTGATATATTGACTCCTTTAGAGAAGTCAGGATTTTGGGATGGAGTT
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gtatgccatcaactctatggaaacctaggagtgcatcttattgacttatttattttttattcttatttgtaataaaatatgactgtattaatttggggacaaccagcattgtccattatttgagcatattaatttcatatgttagtttactaatgtgctcatacttgcacctgatacatattgcatctgtcagCTCCTCAGGAAATAGATGAATATGAACTTGTCGATCCTGTTGATATATTGACCCCTTTAGAAAAGTCAGGATTTTGGGATGGAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtctctcctttgtactactaatattctcatttttcaaatactttgattatcagCTCCTCAAGAAATCGATGAATATGAACTTGTTGATCCTGTTGATATATTGACTCCTTTAGAGAAGTCAGGATTTTGGGATGGAGTT
taatattctcattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtaaaatttagtatctggagtatgtttttctttttctcagacatgctaacatgtctctcctttgtactactaatattctcatttttcaaatactttgattatcagCTCCTCAAGAAATCGATGAATATGAACTTGTTGATCCTGTTGATATATTGACTCCTTTAGAGAAGTCAGGATTTTGGGATGGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA