Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgtggattacttgttgcttctgtctttgagatttaactgtttctgacttcagcaacagaccctataccccttttctttctaacgcaagaagtgtttggttcagtgtccattcatttttttttatcagatcattttatagaagatgcagattctgacttgctttattattgtctcagGTCACAAGAAAGTTTACCAGCAAGGTTGAGGGAAAGATGGGATATGAAGATTTTGTTTACTTCATACTATCAGAAGAGGATAAATCATCTGAACCAAGTC
Basic information
species | Glycine max |
transcript | GLYMA10G30930.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os10g33680.1 (Oryza sativa), 3'ss of exon 8
gtttgtgtggattacttgttgcttctgtctttgagatttaactgtttctgacttcagcaacagaccctataccccttttctttctaacgcaagaagtgtttggttcagtgtccattcatttttttttatcagatcattttatagaagatgcagattctgacttgctttattattgtctcagGTCACAAGAAAGTTTACCAGCAAGGTTGAGGGAAAGATGGGATATGAAGATTTTGTTTACTTCATACTATCAGAAGAGGATAAATCATCTGAACCAAGTC
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---------------------------------------------------------------------------------------------gttagtatgttctattctgcatacagaactg------agatgctgccttagttggcctaaatgttg-tttcctatat-gtta-cttagGTCCCAAGAAAATTCACAAGCATGACAGAAGGAAAGATGGGTTATGAAGATTTTGTTTACTTTATTTTGTCTGAGGAAGACAAATCATCCGAGCCTAGCC
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G148323_T01 (Zea mays), 3'ss of exon 8
gtttgtgtggattacttgttgcttctgtctttgagatttaactgtttctgacttcagcaacagaccctataccccttttctttctaacgcaagaagtgtttggttcagtgtccattcatttttttttatcagatcattttatagaagatgcagattctgacttgctttattattgtctcagGTCACAAGAAAGTTTACCAGCAAGGTTGAGGGAAAGATGGGATATGAAGATTTTGTTTACTTCATACTATCAGAAGAGGATAAATCATCTGAACCAAGTC
|| | | | || | ||| | || ||| ||| || | || | | | || || | |||| | | | || || |||| || || || |||| | || ||||||||||| |||||||| ||||||||||| ||| ||||||| || || ||||||||||| || ||||
----------------------------------------------------------------------------------gttagtctactcaattttagcatcaaaacc--ttagccctttattaccaaaatgttgtgctttgtgtccttatattggccc-ttttactgct--tttagATCCCAAGGAAATTCACAAGCATGACAGAAGGAAAGATGGGTTATGAAGACTTTGTTTACTTTATATTATCAGAGGAAGACAAATCATCTGAGCCTAGTC
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G54450.1 (Arabidopsis thaliana), 3'ss of exon 8
gtttgtgtggattacttgttgcttctgtctttgagatttaactgtttctgacttcagcaacagaccctataccccttttctttctaacgcaagaagtgtttggttca-gtgtccattcatttttttttatcagatcattttatagaagatgcagatt--ctgacttgctttattattgtctcagGTCACAAGAAAGTTTACCAGCAAGGTTGAGGGAAAGATGGGATATGAAGATTTTGTTTACTTCATACTATCAGAAGAGGATAAATCATCTGAACCAAGTC
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----------------------------------------------------------------------------------------------gttagctactccacatctgcattt-cttatttttaaaaaacttttttctactagctgccgaatgtctttgtcactcggtctacttaatagGTACCGAGGAAGTTTACTAGTAAAACCGAAGGAAAGATGGGTTATGAGGATTTTGTTTACTTCATATTGGCTGAAGAAGACAAGTCATCAGAACCTAGTC
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S191_94V6.1 (Physcomitrella patens), 3'ss of exon 9
gtttgtgtggattacttgttgcttctgtctttgagatttaactgtttctgacttcagcaacagaccctataccccttttctttctaacgcaagaagtgtttggttcagtgtccattcatttttttttatcagatcattttatagaagatgcagattctg-acttgctttattattgtctcagGTCACAAGAAAGTTTACCAGCAAGGTTGAGGGAAAGATGGGATATGAAGATTTTGTTTACTTCATACTATCAGAAGAGGATAAATCATCTGAACCAAGTC
| ||||||| || | | | | | | | || ||||| |||| | ||| | | | || | | | ||| ||| | || | || | |||||| ||| | ||||| ||||| ||||| ||||||||||| |||||||| | || ||| |||||||||| |||||| ||||||| | || |
------------------------------------------------------------------------------ttattctaacatgtgatgcttgtagattcttat---tttattttggtttaggtattttatttttctcataggccattaatatatttggttttgtgatgaat-agATACCAAGAAGGTTCAAAAGCAAAGTTGAAGGAAAAATGGGATATGAGGATTTTGTGTGGTTTATATTATCAGAAGAAGATAAAACATCTGAGACTAGCC
upper sequence: GLYMA10G30930.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S34_411V6.1 (Physcomitrella patens), 3'ss of exon 8
gtttgtgtggattacttgttgcttctgtcttt-gagatttaactgtttctgacttcagcaacagaccctataccccttttctttctaacgcaagaagtgtttggttcagtgtccattcatttttttttatcagatcattttatagaagatgcagattctgacttgctttattattgtctcagGTCACAAGAAAGTTTACCAGCAAGGTTGAGGGAAAGATGGGATATGAAGATTTTGTTTACTTCATACTATCAGAAGAGGATAAATCATCTGAACCAAGTC
|| ||| || | |||| | ||| || | || | || ||| ||| ||||| | | | || | | | || ||| | ||| || | | | | | | | |||| |||| ||| || || |||||||| ||| ||||||||||||| |||||||| ||||| | || ||||| ||||||||||| ||||| || ||||| ||
------------------------gtgcatttcgatgtaaaactaggttcagcttttcaaatttgcactcgatccgattt------aacagtgagagtgtcttctctatagtgctaaagtaacactcta-------attccgttcaaggatttgaatgtaa--tacgtggtggatgtc--agGTTCCAAAAAGATTCACCAGCAAAGTTAAGGGAAAGATGGGTTATGAAGACTTTGTGTGGTTTATACTTTCAGAAGAGGACAAATCTTCAGAACCCAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatcagatcattttatagaagatgcagattctgacttgctttattattgtctcagGTCACAAGAAAGTTTACCAGCAAGGTTGAGGGAAAGATGGGATATGAAGATTTTGTTTACTTCATACTATCAGAAGAGGATAAATCATCTGAACCAAGTC
ttctgac putative branch site (score: 2)
ttgtctc putative PPT
atcattttatagaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtgtggattacttgttgcttctgtctttgagatttaactgtttctgacttcagcaacagaccctataccccttttctttctaacgcaagaagtgtttggttcagtgtccattcatttttttttatcagatcattttatagaagatgcagattctgacttgctttattattgtctcagGTCACAAGAAAGTTTACCAGCAAGGTTGAGGGAAAGATGGGATATGAAGATTTTGTTTACTTCATACTATCAGAAGAGGATAAATCATCTGAACCAAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT