Sequence
atgc intronic sequence ATGC exonic sequencegttagttctcgatgtgtccttcattgcattttaagatttattttataatctgaatgtcctaaaactctttttttgtgtggaaatatagGCACTGTGGTGGACTCGAAGATCTGCCATCCAACTGAGTTTGATTTCTACCTGTGCAGCCATGCTGGCATTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G045821_T01 (Zea mays), 3'ss of exon 10
lower sequence: PP1S7_194V6.1 (Physcomitrella patens), 3'ss of exon 15
--------------------------------------------------------------------------------gttagttctcgat---gtgtccttcattgcattt---taagatttattttataatctgaatgtcctaaaactctttttttgtgtggaaatatagGCACTGTGGTGGACTCGAAGATCTGCCATCCAACTGAGTTTGATTTCTACCTGTGCAGCCATGCTGGCATTCAG
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gtgcagtcattattttcgtagaatacattgctttatttatctgcttatatggaagtcattttctttggcattctcaacctgtgagactgcggtatggtgttgttggacgcgttgctgtaacaaccgtgtt-tacactgactaacttcgacatcacatccttcgt---attttagGGACTGTTGTGGACTCGAAGATTTGTCACCCTACGGAGTTTGACTTTTATCTTTGCAGTCATGCTGGAATTCAG
upper sequence: GRMZM2G045821_T01 (Zea mays), 3'ss of exon 10
lower sequence: EFJ15357 (Selaginella moellendorffii), 3'ss of exon 19
gttagttctcgatgtgtccttcattgcattttaagatttattttataatctgaatgtcctaaaactctttttttgtgtggaaatatagGCACTGTGGTGGACTCGAAGATCTGCCATCCAACTGAGTTTGATTTCTACCTGTGCAGCCATGCTGGCATTCAG
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-----------------------gtttgtaggaaagtttgttcaatgtgcttcacaac-taaaacgcttttgct------------agGTACTGTGGTGGATACGAAGATCTGTCATCCCACGGAATTTGATTTCTACCTCTGCAGTCACGCTGGAATACAG
upper sequence: GRMZM2G045821_T01 (Zea mays), 3'ss of exon 10
lower sequence: EFJ19862 (Selaginella moellendorffii), 3'ss of exon 17
gttagttctcgatgtgtccttcattgcattttaagatttattttataatctgaatgtcctaaaactctttttttgtgtggaaatatagGCACTGTGGTGGACTCGAAGATCTGCCATCCAACTGAGTTTGATTTCTACCTGTGCAGCCATGCTGGCATTCAG
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---------------gtgct--gttgccgtttataagtggcgaatttagataactaatgagagaccgttttccttc--------acagGCACTGTGGTGGATTCGAAGATTTGCCATCCAACGGAGTTTGACTTCTACCTTTGCAGCCATGCCGGCATTCAG
upper sequence: GRMZM2G045821_T01 (Zea mays), 3'ss of exon 10
lower sequence: EFJ14095 (Selaginella moellendorffii), 3'ss of exon 17
gttagttctcgatgtgtccttcattgcattttaagatttattttataatctgaatgtcctaaaactctttttttgtgtggaaatatagGCACTGTGGTGGACTCGAAGATCTGCCATCCAACTGAGTTTGATTTCTACCTGTGCAGCCATGCTGGCATTCAG
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--------gtgctgttgccgtcaataagtggcga-atttag---ataact--aatga---gagaccgttttccttc--------acagGCACTGTGGTGGATTCGAAGATTTGCCATCCAACGGAGTTTGACTTCTACCTTTGCAGCCATGCCGGCATTCAG
upper sequence: GRMZM2G045821_T01 (Zea mays), 3'ss of exon 10
lower sequence: EFJ24991 (Selaginella moellendorffii), 3'ss of exon 19
gttagttctcgatgtgtccttcattgcattttaagatttattttataatctgaatgtcctaaaactctttttttgtgtggaaatatagGCACTGTGGTGGACTCGAAGATCTGCCATCCAACTGAGTTTGATTTCTACCTGTGCAGCCATGCTGGCATTCAG
| | || ||| || || || | | |||||| ||||| | ||| ||||||||||| |||||||||| ||||| || || |||||||||||||| ||||| || ||||| || |||
-----------------------gtttgtagcaaagtttgttcaatgtgcttgacaac-taaaacgcttttgct------------agGTACTGTGGTGGATACGAAGATCTGTCATCCCACGGAATTTGATTTCTACCTCTGCAGTCACGCTGGAATACAG
upper sequence: GRMZM2G045821_T01 (Zea mays), 3'ss of exon 10
lower sequence: EFJ19863 (Selaginella moellendorffii), 3'ss of exon 17
gttagttctcgatgtgtccttcattgcattttaagatttattttataatctgaatgtcctaaaactctttttttgtgtggaaatatagGCACTGTGGTGGACTCGAAGATCTGCCATCCAACTGAGTTTGATTTCTACCTGTGCAGCCATGCTGGCATTCAG
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---------------gtgct--gttgccgttaataagtggcgaatttagataactaatgagagaccgttttcct-tg-------acagGCACTGTGGTGGATTCGAAGATTTGCCATCCAACGGAGTTTGACTTCTACCTTTGCAGCCATGGCGGCATTCAG
upper sequence: GRMZM2G045821_T01 (Zea mays), 3'ss of exon 10
lower sequence: EFJ14096 (Selaginella moellendorffii), 3'ss of exon 17
gttagttctcgatgtgtccttcattgcattttaagatttattttataatctgaatgtcctaaaactctttttttgtgtggaaatatagGCACTGTGGTGGACTCGAAGATCTGCCATCCAACTGAGTTTGATTTCTACCTGTGCAGCCATGCTGGCATTCAG
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---------------gtgct--gttgccgttaataagtggcgaatttagataactaatgagagaccgttttccttc--------acagGCACTGTGGTGGATTCGAAGATTTGCCATCCAACGGAGTTTGACTTCTACCTTTGCAGCCATGCCGGCATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatttattttataatctgaatgtcctaaaactctttttttgtgtggaaatatagGCACTGTGGTGGACTCGAAGATCTGCCATCCAACTGAGTTTGATTTCTACCTGTGCAGCCATGCTGGCATTCAG
tcctaaa putative branch site (score: 2)
tattttataatctgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttctcgatgtgtccttcattgcattttaagatttattttataatctgaatgtcctaaaactctttttttgtgtggaaatatagGCACTGTGGTGGACTCGAAGATCTGCCATCCAACTGAGTTTGATTTCTACCTGTGCAGCCATGCTGGCATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG