Sequence
atgc intronic sequence ATGC exonic sequencegtatgcaacttcatcacaccccaacttttcttttcctcctttcatgcaaacccacttcatatttccatgcttaattgcttaccttatatttattttttggatccaatattttcatttttgactttttttgtgtttttttttagGTAAAGCAACTTTTGGTGATCAAGAGTGGTACTTTTTCAGCCCAAGGGATAGGAAATACCCAAATGGGTCAAGGCCTAACAGAGCTGCTTCTTCTGGGTA
Basic information
species | Glycine max |
transcript | GLYMA15G07620.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07620.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S164_33V6.1 (Physcomitrella patens), 3'ss of exon 1
gtatgcaacttcatcacaccccaacttttcttttcctcctttcatgcaaacccacttcatatttccatgcttaattgcttaccttatatttattttttggatccaatattttcatt---tttgactttttttgtgtttttttttagGTAAAGCAACTTTTGGTGATCAAGAGTGGTACTTTTTCAGCCCAAGGGATAGGAAATACCCAAATGGGTCAAGGCCTAACAGAGCTGCTTCTTCTGGGTA
|| || | ||||||| | | |||| | | | || ||||| ||| | | ||| || || || || |||| | | ||| || |||| ||| || || ||||||||| |||||||| |||||||| |||| |||||||||||| | | || ||| | ||||| |||| || |
-----------------------------------------ccaggcggtgttgcg--atatttctggg-tagattgagt--ttaagatgtatttattgtagcacatacttcgataagattaatgttggtttgctctgacatgcagGGAAGGCAATTTTAGGAGAAGGAGAGTGGTATTTTTTCAGTCCAAGGGACCGGAAGTACCCAAATGGGGCTCGACCCAACCGGGCTGCAGCTTCAGGATT
upper sequence: GLYMA15G07620.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S259_67V6.1 (Physcomitrella patens), 3'ss of exon 1
gtatgcaacttcatcacaccccaacttttcttttcctcctttcatgcaaacccacttcatatttccatgcttaattgcttaccttatatttattttttggatccaatattttcatttttgactttttttgtgtttttttttagGTAAAGCAACTTTTGGTGATCAAGAGTGGTACTTTTTCAGCCCAAGGGATAGGAAATACCCAAATGGGTCAAGGCCTAACAGAGCTGCTTCTTCTGGGTA
|| | || || | | | || | || | | | | | || || | ||| || | || | | || ||| ||| || || | |||||| || ||||||||| |||||||||||||| || ||||||||||||||||| | | |||||| ||||||| |||| || ||
-------------------------------------------ttgttgaaacatagcagagcggcctactgattttccgggaatctgtaaaagttcaagagcgtataaattaaaagaatcgattctctactttgatttgcagGCAAGGCTATTTTTGGAGAAGGAGAGTGGTATTTTTTCAGCCCAAGAGACAGGAAATACCCAAATGGAGCTCGCCCTAACCGAGCTGCAGCTTCCGGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttattttttggatccaatattttcatttttgactttttttgtgtttttttttagGTAAAGCAACTTTTGGTGATCAAGAGTGGTACTTTTTCAGCCCAAGGGATAGGAAATACCCAAATGGGTCAAGGCCTAACAGAGCTGCTTCTTCTGGGTA
ttttgac putative branch site (score: 3)
tttttgactttttttg CT-rich tract
aatattttcatttttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcaacttcatcacaccccaacttttcttttcctcctttcatgcaaacccacttcatatttccatgcttaattgcttaccttatatttattttttggatccaatattttcatttttgactttttttgtgtttttttttagGTAAAGCAACTTTTGGTGATCAAGAGTGGTACTTTTTCAGCCCAAGGGATAGGAAATACCCAAATGGGTCAAGGCCTAACAGAGCTGCTTCTTCTGGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT