Sequence
atgc intronic sequence ATGC exonic sequencegtatttgttttaatatatgatatatggtattctgttttctaatccattgtggtatatttgtgttcatttatgtggtgcttaaaatgtgctacagGTGACTGAAGCTGATATTGAGGAGTTTGAAGCAAACTATCGGGGATCTGACTCAGAGAAAAATGATTTGATTGATTTGTACAAGAAGTGCAAGGGTAACA
Basic information
species | Glycine max |
transcript | GLYMA19G32480.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G32480.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G06910.1 (Arabidopsis thaliana), 3'ss of exon 4
---gtatttgttttaatatatgatatatggtattctgttttctaatccattgtggtatatttgtgttcatttatgtgg-tgcttaaaatgtgctacagGTGACTGAAGCTGATATTGAGGAGTTTGAAGCAAACTATCGGGGATCTGACTCAGAGAAAAATGATTTGATTGATTTGTACAAGAAGTGCAAGGGTAACA
| | ||| | ||||| | || | | | || | | | || | | || ||| ||| | |||||| | || |||| | |||||||||||||| |||||||| |||||||| |||||||||| |||||||| || || ||| |||| | | ||| |||| |||||||| |
gtagcagaaactttcactagtgataccttttacac-atctgcttctgctgcttacactaactttttttttttgtgttgctgcttata------tatagGTCAACGAAGCTGATATTGAAGAGTTTGAGGCAAACTACAGGGGATCTGAGTCAGAGAAGAAAGACTTGCTTGAGCTTTTCAACAAGTTTAAGGGTAAAA
upper sequence: GLYMA19G32480.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G12170.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatttgttttaatatatgatatatggtattctgttttctaatccattgtggtatatttgtgttcatttatgtggtgcttaaaatgtgctacagGTGACTGAAGCTGATATTGAGGAGTTTGAAGCAAACTATCGGGGATCTGACTCAGAGAAAAATGATTTGATTGATTTGTACAAGAAGTGCAAGGGTAACA
|| ||| ||||| | | | ||| | | ||| | | ||| | | | | | || | | ||||||| |||| || || | |||||||| |||||||| || |||||| |||| ||||| || ||||| |||||||||||||| | || || |||| |||||||| |
------gtaagaat-catgattcacaattgatttctttttggact-ttgcaacacaactgtttcgttctgtatactgatcatt-tgtgctatagGTCACCGAGGAAGATATTGAAGAGTTTGAGGCCAACTATAGGGGTTCTGAATCCGAGAAGAATGATTTGATTGAGCTATATAACAAGTTTAAGGGTAAAA
upper sequence: GLYMA19G32480.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0007g07960.t01 (Vitis vinifera), 3'ss of exon 4
-------gtatttgttttaatatatgatatatggtattctg-----ttttctaatccattgtggtatatttgtgttcatttatgtggtgcttaaaatgtgctacagGTGACTGAAGCTGATATTGAGGAGTTTGAAGCAAACTATCGGGGATCTGACTCAGAGAAAAATGATTTGATTGATTTGTACAAGAAGTGCAAGGGTAACA
|||| ||| ||| | || | ||| | || || ||| | | | | | | || ||| | || | ||||| ||||| || |||||||| ||||||||||||||||| | |||||||| |||||||| |||||||||||||| ||||||| |||||||||||||| |
gtcatatcattttgccttattatggaaaatttctgatttcacgtaatcctcctatttattttcagactggaaagatgacatgtg-aacacttgcattg-gtagcagGTTACTGAGGCAGATATTGAAGAGTTTGAAGCAAACTACAGAGGATCTGATTCAGAGAAGAATGATTTGATTGACCTGTACAAAAAGTGCAAGGGTAATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatccattgtggtatatttgtgttcatttatgtggtgcttaaaatgtgctacagGTGACTGAAGCTGATATTGAGGAGTTTGAAGCAAACTATCGGGGATCTGACTCAGAGAAAAATGATTTGATTGATTTGTACAAGAAGTGCAAGGGTAACA
ttctaat putative branch site (score: 2)
tatatttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttgttttaatatatgatatatggtattctgttttctaatccattgtggtatatttgtgttcatttatgtggtgcttaaaatgtgctacagGTGACTGAAGCTGATATTGAGGAGTTTGAAGCAAACTATCGGGGATCTGACTCAGAGAAAAATGATTTGATTGATTTGTACAAGAAGTGCAAGGGTAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT