Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgcaattttagttctgaaatttttttcttttggaaaaatactattatcgtaagttcattttctaaattcctgttgatgtattcctttgtgtagGTATTATAAGTGGATTTTGGAACGTAATTTTCACAATTTGAACAAAGGAGTTCGTGGGAATCAG
Basic information
species | Glycine max |
transcript | GLYMA14G03780.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os07g46590.1 (Oryza sativa), 3'ss of exon 5
gtaagtgcaattttagttctgaaatttttttcttttggaaaaatactattatcgtaagttcattttctaaattcctgttgatgtattcctttgtgtagGTATTATAAGTGGATTTTGGAACGTAATTTTCACAATTTGAACAAAGGAGTTCGTGGGAATCAG
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gtaaatact-ttgtactaatgtaagtttatgttccttttatt-catcattgagataaaatcatttt------tcctaattaattatt---------agGTATTACAAATGGATTTTGGAGCGGAATTTCCAGAATCTCAACAAAGGAGTTCGTGGGAATCAG
upper sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM2G141258_T01 (Zea mays), 3'ss of exon 16
-----------------------------------------------------------------gtaagtgcaattttagttctgaaattttttt---------------cttttggaaaaatactattatc--gtaagttcattttctaaattcctgttgatgtattcctttgtg-tagGTATTATAAGTGGATTTTGGAACGTAATTTTCACAATTTGAACAAAGGAGTTCGTGGGAATCAG
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gtgagtactccgggctaattttcttgaaccaatcttttttgacaagttttcttattagtttggatggaattggaacccgcattcttaaatcttttttccaagctccaaaccctccctggaccttggagctgccaaacatgcccttattgtacactgaggctaattttttggtttttactagGTACTACAAGTGGATTTTAGAGCGGAATTTTCAGAATCTGAATAAAGGTGTTCGTGGGAATCAG
upper sequence: GLYMA14G03780.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv06s0009g03750.t01 (Vitis vinifera), 3'ss of exon 16
gtaagtgcaattttagttctgaaatttttttcttttggaaaaatactattatcg--taagttcattttctaaattcctgttgatgtattcctttgtgtagGTATTATAAGTGGATTTTGGAACGTAATTTTCACAATTTGAACAAAGGAGTTCGTGGGAATCAG
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-----------gttagtatt-atccttaacttgtatgaagtagtatcatttctggttatatcagttttctctattctcacctg-gtacttacattcatagGTATTATAAGTGGATTTTGGAACGCAATTTCCATGACTTGAACAAAGGAGTTCGTGGGAATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactattatcgtaagttcattttctaaattcctgttgatgtattcctttgtgtagGTATTATAAGTGGATTTTGGAACGTAATTTTCACAATTTGAACAAAGGAGTTCGTGGGAATCAG
tattccttt CT-rich tract
ttcattttctaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgcaattttagttctgaaatttttttcttttggaaaaatactattatcgtaagttcattttctaaattcctgttgatgtattcctttgtgtagGTATTATAAGTGGATTTTGGAACGTAATTTTCACAATTTGAACAAAGGAGTTCGTGGGAATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG