Sequence
atgc intronic sequence ATGC exonic sequencegtttgaattcctttttgctttgcatcttatttgtttttccttgtggtagatattcattagttatttatgtcacttgcttttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCACGGGGCAGTTCCTATATTTGTCAAGCTAC
Basic information
species | Glycine max |
transcript | GLYMA07G37180.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G37180.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
----gtttgaattcctttttgctttgcatcttatttgtttttccttgtggtagatattcattagttatttatgt-cacttgcttttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCACGGGGCAGTTCCTATATTTGTCAAGCTAC
|| || | | || ||| |||| || | || || | || ||| ||| | || | ||| || || | ||||| || ||||||||||| || ||||||||||||||||| ||||| ||||| || ||||| || |||||||| ||||| || || |||||||| ||||| |
gtgtgtgccaacacaatattatttt---cattatctggtagg--ttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
upper sequence: GLYMA07G37180.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 3
gtttgaattcctttttgctttgcatcttatttgtttttccttgtggtagatattcattagttatttatgtcacttgcttttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCACGGGGCAGTTCCTATATTTGTCAAGCTAC
| || ||| | | | ||||| | | || | ||| || | || | || | || ||| || ||| | ||||| || || || |||||||||||||| ||||| ||||| ||||| || || || ||||| || |||||||| ||||| |||||||||||||| ||||| |
----gtatgttgatttaatataaaccttatatcctgttgttgctggatgaaa---atgaatttctcatcagctttgtaattcttt-tgtagTTCGAAGCAGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTC
upper sequence: GLYMA07G37180.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G088231_T01 (Zea mays), 3'ss of exon 3
------gtttgaa---ttcctttttgctttgcatcttatttgtttttccttgt-ggtagatattcattagttatttatgtcacttgcttttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCACGGGGCAGTTCCTATATTTGTCAAGCTAC
| || || | | | | ||| | | | |||| | | ||| || | || | ||| || || ||| | |||||||| || || |||||||||||||| ||||| ||||| ||||| || || || |||| || ||||| || ||||| |||||||||||||| ||||| |
tttggcgcttaaaaggtgcttaagcgattttttagtaaccatgaccccgttgtcgctggatgaaaatgaatttctcatgagctttataattcttt-tgtagTTTGAAGCCGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGCTGTTATTGACCATGGGGCTGTTCCTATATTTGTGAAGCTTC
upper sequence: GLYMA07G37180.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 3
gtttga-attcctttttgctttgcatcttatttgtttttccttgtggtagatattcattagttatttatgtcact--tgcttttg--tttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCACGGGGCAGTTCCTATATTTGTCAAGCTAC
||||| ||| | |||| | | || ||| || || | | || ||| || |||| ||| | || || ||||| ||||||||||| || |||||||||||||||||||| |||||||| || || || || ||||||||||||||||| || ||||| || |||||||| |||||||
gtttgggattgttctttgttacattgttgtttggttattagcagttttgtagtttgtttaagtacttatttcaataatggcttcaattttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttccttgtggtagatattcattagttatttatgtcacttgcttttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCACGGGGCAGTTCCTATATTTGTCAAGCTAC
cttttgttt CT-rich tract
tagatattcattagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgaattcctttttgctttgcatcttatttgtttttccttgtggtagatattcattagttatttatgtcacttgcttttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCACGGGGCAGTTCCTATATTTGTCAAGCTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT