Sequence
atgc intronic sequence ATGC exonic sequencegtgatgtgtaaatttagcaatcagtttctaatccatatggacaaaaatataaaaggaaataaagctatttacattttcatttttattttgtatattgcagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
Basic information
species | Glycine max |
transcript | GLYMA04G04060.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G04060.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv18s0001g10680.t01 (Vitis vinifera), 3'ss of exon 8
--------gtgatgtgtaaatttagcaatc---agtttctaatccatatggacaaaaatataaaaggaaataaa----gctatttacattttcatttt---------tattttgtatattg-cagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
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gtgagggagaattgtttttacttcttgatttgaagtgagaaatcaaaatttaggaaccctgaatgttttatttattttattatttattcctttcttttaaagaatatcatttttcatattttcagGATGGAAAGGCTTTGCCAGATGGGCCAGTTGTTATTTCCCCTGATGGACTTTTTCCTTCTCTCTTTCGAGAAG
upper sequence: GLYMA04G04060.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S39_351V6.1 (Physcomitrella patens), 3'ss of exon 6
----------------------------------------------------gtgatgtgtaaatttagcaatcagtttctaatcc----atatggacaaaaatataaaag-------gaaataaagctatttaca--------ttttcatttttattttgtatattgcagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
| | | || | || | ||||| | |||||| ||| || | || | |||| | | | | ||| ||| | || ||||||||| || ||| |||||||||| || ||||| ||||| ||||||||||| |||||||| || ||||| ||||
gttcgtgagttcattactgaatctttattattaaatgaaaacattcaagttagcctaattttaaactgataagaactttcttgttttagtatatggcgaaacatgttaataccttcttgccggaaagatgtcaagagtaaagtttttccatcacaaattctatcattgcagGACGGTGAAGCACTACCAGATGGACCAGTTGTCATTTCTCCTGATGGACTCTTTCCCTCCCTCTATCGCGAAG
upper sequence: GLYMA04G04060.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S2_272V6.2 (Physcomitrella patens), 3'ss of exon 6
------------------------------------------------------------------------gtgatgtgtaa--atttagcaatcagtttctaatc----catatggacaaaaatataaaaggaaataaagctat-----ttacattttcatttttattttgtatattgcagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
| |||| | |||| | ||| || | | | |||| | | || | || | | | ||| | |||||| |||| ||||||||||||| ||| | |||||||| || ||||||||||| ||||||||||| ||||||||||| ||||| ||||
gtgcgctatttgttttaaaataataattcaaaacagccgactttagactgattctgaagaaattttcttgttttcatgtagagtgatttggaggtcaactttccaccttgacctatgtctatagctacttgttgtaaagaggtcttgaatattataatttcatcacaatttctgttattgcagGATGGTGAAGCACTTCCAGATGGACCAGTTGTTATTTCTCCTGATGGACTCTTTCCCTCTCTTTATCGCGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatataaaaggaaataaagctatttacattttcatttttattttgtatattgcagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
aaataaagctatttac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatgtgtaaatttagcaatcagtttctaatccatatggacaaaaatataaaaggaaataaagctatttacattttcatttttattttgtatattgcagGATGGAAAAGTTTTACCAGATGGTCCTGTTGTTATTTCCCCTGATGGACTTTTTCCCTCTCTATATCGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA