Sequence
atgc intronic sequence ATGC exonic sequence...aaaaatatatacattacctttaggacaatagcatgttggggacattaatgttatcccttgtttggttatctaatgcattgttaggactgttcatatgtagGACTTGCTGAGGGTATATAAAGAGACCAGGAATGGGATGTTGGGGCCTGATTATTCTACCAAATTCTCACCATGGCTTGCCTCAGGAAGTTTGTCTCCTC
Basic information
species | Glycine max |
transcript | GLYMA04G07870.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G07870.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G24850.1 (Arabidopsis thaliana), 3'ss of exon 5
aaaaatatatacattacctttaggacaatagcatgtt---ggggacattaatgttatcccttgtttggttatctaatgcattgttaggactgttcatatgtagGACTTGCTGAGGGTATATAAAGAGACCAGGAATGGGATGTTGGGGCCTGATTATTCTACCAAATTCTCACCATGGCTTGCCTCAGGAAGTTTGTCTCCTC
|||| ||| | || | | ||| || | ||||| || || ||||| | || || || ||| |||| | ||| ||||| |||||||| ||||| || ||||| || ||||||||||| || |||||||| || |||||||||| || || | |||||||
----------------gtaagaggataatgagctattcttgtgtttcttattggcgttgcttgtgtgtgtacataatgt-tgtttgtctcttttttcatgcagGATCTATTGAAAGTATACAAAGAGACGAGGAACGGAATGTTAGGACCTGATTATTCGACGAAATTCTCTCCTTGGCTTGCCTTTGGGTGTATCTCTCCTC
upper sequence: GLYMA04G07870.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0008g02670.t01 (Vitis vinifera), 3'ss of exon 5
aaaaatatatacattacctttaggacaatagcatgttggggacattaatgttatcccttgtttggttat-ctaatg----cattgttaggactgt-tcatatgtagGACTTGCTGAGGGTATATAAAGAGACCAGGAATGGGATGTTGGGGCCTGATTATTCTACCAAATTCTCACCATGGCTTGCCTCAGGAAGTTTGTCTCCTC
| |||| | || || || || | | | || | | | | || || ||| | || | | || || ||||| ||||||| ||| ||||||| || |||||||||||||||||| ||||||| |||||||||||||| ||||||||||| |||||||| | || || |
-----cgtg-acatcattattttgagtatcttgtgctagagtttatagtagaaaaacaaacccaatgatactgatggtgctgtcttttaatttctgtcttacctagGATTTGCTGAAGGTCTATAAAGCAACAAGGAATGGGATGTTGGGGGCTGATTACTCTACCAAATTCTCTCCATGGCTTGCTTCAGGAAGCCTCTCCCCCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgttatcccttgtttggttatctaatgcattgttaggactgttcatatgtagGACTTGCTGAGGGTATATAAAGAGACCAGGAATGGGATGTTGGGGCCTGATTATTCTACCAAATTCTCACCATGGCTTGCCTCAGGAAGTTTGTCTCCTC
atctaat putative branch site (score: 3)
ttatctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaatatatacattacctttaggacaatagcatgttggggacattaatgttatcccttgtttggttatctaatgcattgttaggactgttcatatgtagGACTTGCTGAGGGTATATAAAGAGACCAGGAATGGGATGTTGGGGCCTGATTATTCTACCAAATTCTCACCATGGCTTGCCTCAGGAAGTTTGTCTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC