Sequence
atgc intronic sequence ATGC exonic sequence...attctaattttattattgtttttaatgagtattttattagtgtttgaaaacatcgttgtatgctaggataatatttttgtgtgtggaaatattatggcagGCAGAAAATGTGACACACACGGGTCCAACGAAGCTAGTGCTGTACTTCACAGGAGCCACCAACATACTGTACACGTTTGGTGGACATGCAGTTACTGT
Basic information
species | Glycine max |
transcript | GLYMA07G17810.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G17810.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0007g02030.t01 (Vitis vinifera), 3'ss of exon 5
-------------------attctaatttta----ttattgtttttaatgagtattt-------tattagtgtttgaaaacatcgttgtatgctaggat-------aatatttttgtgtgtggaaatattatggcagGCAGAAAATGTGACACACACGGGTCCAACGAAGCTAGTGCTGTACTTCACAGGAGCCACCAACATACTGTACACGTTTGGTGGACATGCAGTTACTGT
|| | || || ||||| | | ||| ||| ||| | | || || | || | || | | | | | ||||| | | | | || | || | ||| ||| ||||| | | |||||| |||||||||||||| || || || ||||||||||| || ||||| |||||||||||||| ||||||||
gtattactcatcaaccatcatcatctttctagggtttatttctctgaatcagtgtttgaggttatggtgctgattttctatattgcagtgagtaaagttttgtgcgggtgtttttttttttttgt-tttttttatagTCTGAAGGAGTGGCACACTCAGCTCCAACAAAGCTAGTGCTGTATTTTACTGGCGCCACCAACATCCTCTACACCTTTGGTGGACATGCTGTTACTGT
upper sequence: GLYMA07G17810.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S211_67V6.1 (Physcomitrella patens), 3'ss of exon 4
-------attctaattttattattgtttttaatg-agtattttattagtgtttgaaaacatcgttgtatgctaggataatatttttgt----gtgtggaaatattatgg---cagGCAGAAAATGTGACACACACGGGTCCAACGAAGCTAGTGCTGTACTTCACAGGAGCCACCAACATACTGTACACGTTTGGTGGACATGCAGTTACTGT
| | | | | || || | | || | || | ||| ||| | || | || | | ||| | | || ||| | | |||| ||| | ||||| || |||| || || | | || |||||||||||||||| |||||||| ||||| || || ||||| || || ||||||||
gtgacgaactgttcctcttcaatggtataaattgcaactggttttcagtcacagaatccttccatcaattttgctctcatactcctaacaaggttctgaactgtgatggagctagGTTGCCAATGTCGTCCATACGGCGCCGACAACGAAGGTCTTGTACTTCACAGGAGCAACCAACATTCTGTATACTTTCGGTGGCCACGCTGTTACTGT
upper sequence: GLYMA07G17810.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S90_46V6.1 (Physcomitrella patens), 3'ss of exon 4
----------------------------------attctaattttatta-------ttgtttttaatgagtattttat-tagtgtttgaaaacatcgttgtatgctaggataatatttttgt----gtgtggaaatattatgg---cagGCAGAAAATGTGACACACACGGGTCCAACGAAGCTAGTGCTGTACTTCACAGGAGCCACCAACATACTGTACACGTTTGGTGGACATGCAGTTACTGT
|| || || | | | ||| || | | || ||| ||| | | ||| | | |||| || | | | || | | | |||||| |||| | ||||| || | | |||||||| || |||||||||||||||| ||||| || |||||||| |||||||| || || ||||||||
gtaatggacttcaacgacgtgaattgctacgggttttttatttacaggaagacgagtcatttctattcatctttatatatagccatcaatctaatcaatttctgctttc-caacactcctaacgaggttctggacttttatggagccagGTTGCCAATGTTGTTCATTCTGCTCCAACGACCAAGGTCTTGTACTTCACAGGAGCAACCAATATTCTGTACACCTTTGGTGGTCACGCTGTTACTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaacatcgttgtatgctaggataatatttttgtgtgtggaaatattatggcagGCAGAAAATGTGACACACACGGGTCCAACGAAGCTAGTGCTGTACTTCACAGGAGCCACCAACATACTGTACACGTTTGGTGGACATGCAGTTACTGT
taggataatattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attctaattttattattgtttttaatgagtattttattagtgtttgaaaacatcgttgtatgctaggataatatttttgtgtgtggaaatattatggcagGCAGAAAATGTGACACACACGGGTCCAACGAAGCTAGTGCTGTACTTCACAGGAGCCACCAACATACTGTACACGTTTGGTGGACATGCAGTTACTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - -gtgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtgtg