Sequence
atgc intronic sequence ATGC exonic sequence...acaaactaccttttgtactgaaacctggaattataagtagtggagtaaatgcccacataatatattgaagatacagggactaacaaattcccaataccagATTGTTGTACCAAATCCAGATGTGCGAGGTCGGCAAGAAATATTGGAACTCTATCTGCAAGATAAACCTGTAGCTGATGATGTAGATGTTAAAGCAATTG
Basic information
species | Glycine max |
transcript | GLYMA14G29810.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G29810.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G004040_T01 (Zea mays), 3'ss of exon 11
--------acaaactaccttttgtactgaaacctg-gaattataagtagtggagtaaatgcccacataatatattgaagat--acagggactaacaaattcccaataccagATTGTTGTACCAAATCCAGATGTGCGAGGTCGGCAAGAAATATTGGAACTCTATCTGCAAGATAAACCTGTAGCTGATGATGTAGATGTTAAAGCAATTG
| | | | || | |||| ||| | || | | | ||| | | | ||| | | || | | | ||| |||||||||| |||| |||||||||||| ||||| ||||| || |||| |||||| |||||||||| || || || ||||||||||| | || |||||||
gtaagtcgtctgagcatatgttttcctgatcttgatgaagtgtatcacctaaaagttctatccagtgagtgcaaaaaagtttgattaattctgttgagctttctttactagATTGTTGTCCCAAGTCCAGATGTGCGGGGTCGCCAAGAGATTCTGGAGCTCTATTTGCAAGATAAGCCAGTGGCAAATGATGTAGATATCAATGCAATTG
upper sequence: GLYMA14G29810.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G156069_T01 (Zea mays), 3'ss of exon 11
acaaactacct---tttgtactgaaacctggaattataagtagtggagtaaatgccca---cataatatattgaagat-acagggactaacaaattcccaataccagATTGTTGTACCAAATCCAGATGTGCGAGGTCGGCAAGAAATATTGGAACTCTATCTGCAAGATAAACCTGTAGCTGATGATGTAGATGTTAAAGCAATTG
|| |||| | ||| | |||| || | | |||| | | | | | || | ||| | | | | | | || ||||||| || |||| |||||||||||| ||||| ||||| || |||| |||||| |||||||||| || || || ||||||||||| | || |||||||
gtaagtcacctgagcatatacggtttcctgatcttg-atgaagtgtatcacctatcaagtgcagtgcaaattttttttgattaattccgttgagctttcttcactagATTGTCGTCCCAAGTCCAGATGTGCGGGGTCGCCAAGAGATTCTGGAGCTCTATTTGCAAGATAAGCCAGTGGCAAATGATGTAGATATCAATGCAATTG
upper sequence: GLYMA14G29810.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0050g02630.t01 (Vitis vinifera), 3'ss of exon 11
-acaaactaccttttgtactgaaacctggaatta-taagtagtggagtaaatgcccacataatatattgaagatacagggactaacaaattcccaataccagATTGTTGTACCAAATCCAGATGTGCGAGGTCGGCAAGAAATATTGGAACTCTATCTGCAAGATAAACCTGTAGCTGATGATGTAGATGTTAAAGCAATTG
| | | | || || | || | | | || | ||||| | | | ||| ||||||| | | |||||||||| ||||||||||||||| | || || ||||| |||||||| ||||||||||| |||||||| | |||||||||||||||| ||||||||||
gtcttcttgggataatttctaaattttctcatcaatttattctgaattaaattttttct--gcttttggaaagagtgaaatttaacaaaaatttgcttctagATTGTTGTTCCAAATCCAGATGTGAGGGGCCGTCAAGAGATATTGGAGCTCTATCTGCAGGATAAACCATTGTCTGATGATGTAGATGTCAAAGCAATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatgcccacataatatattgaagatacagggactaacaaattcccaataccagATTGTTGTACCAAATCCAGATGTGCGAGGTCGGCAAGAAATATTGGAACTCTATCTGCAAGATAAACCTGTAGCTGATGATGTAGATGTTAAAGCAATTG
gactaac putative branch site (score: 1)
ttccc putative PPT
ataatatattgaagat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acaaactaccttttgtactgaaacctggaattataagtagtggagtaaatgcccacataatatattgaagatacagggactaacaaattcccaataccagATTGTTGTACCAAATCCAGATGTGCGAGGTCGGCAAGAAATATTGGAACTCTATCTGCAAGATAAACCTGTAGCTGATGATGTAGATGTTAAAGCAATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - ccttttg
- - - - - - - - - tgaaacc
- - - - - - - - - - - - - - - - - - gtagtgg
- - - - - - - - - - - - - - - - - - - - - - - - - gcccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actaaca