Sequence
atgc intronic sequence ATGC exonic sequencegtaaaattaacagtgatgtttatacttcgtattgttctgctcattgattttgctttctatttttgattttattgatggaacagatattagggtttatttttattattcctaattttgtgggtaaataattttactacattcgtgcagGATGATGCTGGTGGGGGTCTAGTTTTCTGGCACCCAAAGGGTGCTATGGTCAGACACATAATTGAAGATTTCTGGAAAAAAATTCACATGAAACGTGGCT
Basic information
species | Glycine max |
transcript | GLYMA19G37550.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G37550.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g33500.1 (Oryza sativa), 3'ss of exon 4
gtaaaattaacagtgatgtttatacttcgtattgttctgctcattgattttgctttctatttttgatttta--ttgatggaacagatattagggtttatttttattattcctaattttgtgggtaaataattttactacattcgtgcagGATGATGCTGGTGGGGGTCTAGTTTTCTGGCACCCAAAGGGTGCTATGGTCAGACACATAATTGAAGATTTCTGGAAAAAAATTCACATGAAACGTGGCT
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----------------------------------------------acaaccctatgccactttaattcaggcctgattacatgcatatccaacttttttttttactttttatttatagtaactgtagaatatgaat---ttttaacagGAAGATGCTGGTGGCGGTTTAGTATTCTGGCATCCAAAAGGTGCTATTATCAGACATGTTTTAGAAGACTCATGGAAACAGATTCACTTGCAACGTGGTT
upper sequence: GLYMA19G37550.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0057g00400.t01 (Vitis vinifera), 3'ss of exon 4
------gtaaaattaacagtgatgtttatacttcgtattgtt--ctgctcattgattttgctttctatttttgattttattgatggaacagatattagggtttatttttattattcctaattttgtgggtaaataattttact-acattcgtgcagGATGATGCTGGTGGGGGTCTAGTTTTCTGGCACCCAAAGGGTGCTATGGTCAGACACATAATTGAAGATTTCTGGAAAAAAATTCACATGAAACGTGGCT
| | || | || || | | || || | | | | ||| ||| | |||| ||||||||| |||| ||| || | | | | | | ||| | | | | || | | | | |||||||||| |||||||| |||||||| |||||||| ||||||||||| || || || | || || ||||||| ||||||||||| || || ||| |||||
gtagctccctattggacttgtaccagaatggtttggagtgaggattgataaatcagttttcttcttcttttcaattttattgttggattgctccttatccactagtatgaat-tcattcctttaatatcttaggcttcttgatgaaacttctgcagGATGAAGCTGGTGGAGGTCTAGTGTTCTGGCATCCAAAGGGTGCCATTGTTAGGCGTATTATAGAAGATTCATGGAAAAAAATACATATAGAACATGGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatttttattattcctaattttgtgggtaaataattttactacattcgtgcagGATGATGCTGGTGGGGGTCTAGTTTTCTGGCACCCAAAGGGTGCTATGGTCAGACACATAATTGAAGATTTCTGGAAAAAAATTCACATGAAACGTGGCT
tcctaat putative branch site (score: 2)
ttttattattcctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaattaacagtgatgtttatacttcgtattgttctgctcattgattttgctttctatttttgattttattgatggaacagatattagggtttatttttattattcctaattttgtgggtaaataattttactacattcgtgcagGATGATGCTGGTGGGGGTCTAGTTTTCTGGCACCCAAAGGGTGCTATGGTCAGACACATAATTGAAGATTTCTGGAAAAAAATTCACATGAAACGTGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA